Oxyura jamaicensis isolate SHBP4307 breed ruddy duck chromosome 32, BPBGC_Ojam_1.0, whole genome shotgun sequence.
type: Entry
definition: Oxyura jamaicensis isolate SHBP4307 breed ruddy duck chromosome 32, BPBGC_Ojam_1.0, whole genome shotgun sequence.
sequence version: NC_048923.1
sequence date: 2020-07-05
sequence: sequence
division: CON
label: NC_048923.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA641662
dblink: SAMN13257492
keyword: WGS
keyword: RefSeq
source: Oxyura jamaicensis (ruddy duck)
organism: Oxyura jamaicensis
taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Anseriformes; Anatidae; Anatinae; Oxyura.
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCM021829.1.\nAssembly name: BPBGC_Ojam_1.0\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Brood Parasitic Bird Genomes\nConsortium on 2020/03/10. The original whole-genome shotgun project\nhas the accession JAACYN000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Brood Parasitic Bird Genomes Consortium\nAssembly Date :: 01-SEP-2019\nAssembly Method :: Supernova 2 v. SEPT-2019\nAssembly Name :: BPBGC_Ojam_1.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 60.0x\nSequencing Technology :: Illumina NovaSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Oxyura jamaicensis Annotation\n Release 100\nAnnotation Version :: 100\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.4\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000340
sequence length: 50538
topology: linear
so has quality: SO_0000987
location: 1..50538
location: region:1-50538:1
RO_0002162: 8884

NC_048923
type: RefSeq
SIO_000068: refseq

PRJNA641662
type: BioProject
SIO_000068: bioproject

SAMN13257492
type: BioSample
SIO_000068: biosample

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:50538:1
position: 50538
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-50538:1:source
so part of: sequence
organism: Oxyura jamaicensis
mol type: genomic DNA
isolate: SHBP4307
chromosome: 32
sex: female
tissue type: blood
dev stage: adult
country: USA: Scotland Neck, NC
breed: ruddy duck

8884
type: Taxonomy
SIO_000068: taxonomy

SUPT5H
type: Gene
subclass of: SO_0000704
RO_0002162: 8884
gene: SUPT5H
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: <628..9460
location: region:628-9460:1
so has part: feature:628-9460:1:exon
subclass of: SO_0000010

118155503
type: Gene
SIO_000068: ncbigene

position:628:1
position: 628
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:9460:1
position: 9460
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:628-9460:1:exon

SUPT5H
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: SUPT5H
product: SPT5 homolog, DSIF elongation factor subunit
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 97% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_035308807.1
SIO_010081: SUPT5H
subclass of: SO_0000673
so part of: SUPT5H
location: join(<628..914,995..1015,1604..1720,1843..1912,2026..2094,2179..2244,2412..2442,2509..2577,2680..2931,3030..3119,3206..3276,3409..3514,3764..3857,3950..4086,4191..4346,4442..4588,4830..4976,5155..5280,5401..5485,5583..5687,5804..5906,6001..6128,6344..6449,6634..6792,7059..7227,7306..7509,8669..8764,9154..9460)
location: region:628-9460:1
so has part: feature:628-914:1:exon
so has part: feature:995-1015:1:exon
so has part: feature:1604-1720:1:exon
so has part: feature:1843-1912:1:exon
so has part: feature:2026-2094:1:exon
so has part: feature:2179-2244:1:exon
so has part: feature:2412-2442:1:exon
so has part: feature:2509-2577:1:exon
so has part: feature:2680-2931:1:exon
so has part: feature:3030-3119:1:exon
so has part: feature:3206-3276:1:exon
so has part: feature:3409-3514:1:exon
so has part: feature:3764-3857:1:exon
so has part: feature:3950-4086:1:exon
so has part: feature:4191-4346:1:exon
so has part: feature:4442-4588:1:exon
so has part: feature:4830-4976:1:exon
so has part: feature:5155-5280:1:exon
so has part: feature:5401-5485:1:exon
so has part: feature:5583-5687:1:exon
so has part: feature:5804-5906:1:exon
so has part: feature:6001-6128:1:exon
so has part: feature:6344-6449:1:exon
so has part: feature:6634-6792:1:exon
so has part: feature:7059-7227:1:exon
so has part: feature:7306-7509:1:exon
so has part: feature:8669-8764:1:exon
so has part: feature:9154-9460:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:628-914:1:exon

position:914:1
position: 914
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:995-1015:1:exon

position:995:1
position: 995
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1015:1
position: 1015
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:1604-1720:1:exon

position:1604:1
position: 1604
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1720:1
position: 1720
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:1843-1912:1:exon

position:1843:1
position: 1843
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1912:1
position: 1912
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 5
SIO_000628: feature:2026-2094:1:exon

position:2026:1
position: 2026
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2094:1
position: 2094
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 6
SIO_000628: feature:2179-2244:1:exon

position:2179:1
position: 2179
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2244:1
position: 2244
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 7
SIO_000628: feature:2412-2442:1:exon

position:2412:1
position: 2412
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2442:1
position: 2442
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 8
SIO_000628: feature:2509-2577:1:exon

position:2509:1
position: 2509
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2577:1
position: 2577
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 9
SIO_000628: feature:2680-2931:1:exon

position:2680:1
position: 2680
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2931:1
position: 2931
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 10
SIO_000628: feature:3030-3119:1:exon

position:3030:1
position: 3030
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3119:1
position: 3119
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 11
SIO_000628: feature:3206-3276:1:exon

position:3206:1
position: 3206
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3276:1
position: 3276
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 12
SIO_000628: feature:3409-3514:1:exon

position:3409:1
position: 3409
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3514:1
position: 3514
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 13
SIO_000628: feature:3764-3857:1:exon

position:3764:1
position: 3764
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3857:1
position: 3857
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 14
SIO_000628: feature:3950-4086:1:exon

position:3950:1
position: 3950
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4086:1
position: 4086
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 15
SIO_000628: feature:4191-4346:1:exon

position:4191:1
position: 4191
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4346:1
position: 4346
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 16
SIO_000628: feature:4442-4588:1:exon

position:4442:1
position: 4442
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4588:1
position: 4588
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 17
SIO_000628: feature:4830-4976:1:exon

position:4830:1
position: 4830
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4976:1
position: 4976
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 18
SIO_000628: feature:5155-5280:1:exon

position:5155:1
position: 5155
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5280:1
position: 5280
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 19
SIO_000628: feature:5401-5485:1:exon

position:5401:1
position: 5401
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5485:1
position: 5485
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 20
SIO_000628: feature:5583-5687:1:exon

position:5583:1
position: 5583
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5687:1
position: 5687
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 21
SIO_000628: feature:5804-5906:1:exon

position:5804:1
position: 5804
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5906:1
position: 5906
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 22
SIO_000628: feature:6001-6128:1:exon

position:6001:1
position: 6001
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6128:1
position: 6128
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 23
SIO_000628: feature:6344-6449:1:exon

position:6344:1
position: 6344
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6449:1
position: 6449
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 24
SIO_000628: feature:6634-6792:1:exon

position:6634:1
position: 6634
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6792:1
position: 6792
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 25
SIO_000628: feature:7059-7227:1:exon

position:7059:1
position: 7059
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7227:1
position: 7227
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 26
SIO_000628: feature:7306-7509:1:exon

position:7306:1
position: 7306
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7509:1
position: 7509
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 27
SIO_000628: feature:8669-8764:1:exon

position:8669:1
position: 8669
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:8764:1
position: 8764
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 28
SIO_000628: feature:9154-9460:1:exon

position:9154:1
position: 9154
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

SUPT5H
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: SUPT5H
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 2
product: transcription elongation factor SPT5
translation: AFGEALGRFWGSFTGFWGVWGFVQPPLTLFLAPPNPPPPRIVAQAEEERASAAGSEKEEAEEEEEEEEYDEEEEEEDDDRPAKKPRHGGFILDEADVDDEYEVSSFPFVPPSPRGWFCRYFLLHTVCPPPPPPCSRAEEIEASNIDNVVLDEDRSGARRLQNLWRDQREEELGEYYMKKYAKSSVGETVYGGSDELSDDITQQQLLPGVKDPNLWTVKCKIGEERATAIALMRKFIAYQFTDTPLQIKSVVAPEHVKGYIYVEAYKQTHVKQAIEGVGNLRMGYWNQQMVPIKEMTDVLKVVKEVTNLKPKSWVRLKRGIYKDDIAQVDYVEPSQNQISLKMIPRIDFDRIKARMSLKDWFAKRKKFKRPPQRLFDAEKIRSLGGDVASDGDFLIFEGNRYSRKGFLFKSFAMSAVITEGVKPTLSELEKFEDQPEGIDLEVVTESTGKEREHNFQPGDNVEVCEGELINLQGKILSVDGNKITIMPKHEDLKDMLEFPAQELRKYFKMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKVLPRDLQLCSETASGVDVGGQHEWGELVQLDPQTVGVIVRLERETFQVLNMYGKVVTVRHQAVTRKKDNRFAVALDSEQNNIHVKDIVKVIDGPHSGREGEIRHLFRGFAFLHCKKLVENGGMFVCKTRHLVLAGGSKPRDVTNFTVAGFTPMSPRITSPMHPSGAGQRGGFGGGGMSRGRGRRDNDLIGQTVRISQGPYKGYIGVVKDATESTARVELHSTCQTISVDRQRLTTVGSRRPGGMTSTYGRTPMYGSQTPMYGSGSRTPMYGSQTPLHDGSRTPHYGSQTPLHDGSRTPAQSGAWDPNNPNTPSRADEDFEYGFDDEPTPSPQGYGGTPNPQTPGYPDPSSPQVTQPYNPQTPGTPAMYNTDQFSPYAVPSPQGSYQPSPSPQSYHQVAPSPVGYQNTHSPASYHPTPSPMAYQASPSPSPVGYSPMTPGAPSPGGYNPHTPGSGIEQSSSDWVTTDIQVKVRDTYLDSQAVGQTGVIRSVTGGMCSVYLKDSEKVVSISSEHLEPVTPTKSNKVKVILGEDREATGILLSIDGEDGIVRMDLDEQLKILNLRFLGKLLEA
SIO_010081: SUPT5H
subclass of: SO_0000673
so part of: SUPT5H
location: join(<628..914,995..1015,1604..1720,1843..1912,2026..2094,2179..2244,2412..2442,2509..2577,2680..2931,3030..3119,3206..3276,3409..3514,3764..3857,3950..4086,4191..4346,4442..4588,4830..4976,5155..5280,5401..5485,5583..5687,5804..5906,6001..6128,6344..6449,6634..6792,7059..7227,7306..7509,8669..8764,9154..9297)
location: region:628-9297:1
so has part: feature:628-914:1:exon
so has part: feature:995-1015:1:exon
so has part: feature:1604-1720:1:exon
so has part: feature:1843-1912:1:exon
so has part: feature:2026-2094:1:exon
so has part: feature:2179-2244:1:exon
so has part: feature:2412-2442:1:exon
so has part: feature:2509-2577:1:exon
so has part: feature:2680-2931:1:exon
so has part: feature:3030-3119:1:exon
so has part: feature:3206-3276:1:exon
so has part: feature:3409-3514:1:exon
so has part: feature:3764-3857:1:exon
so has part: feature:3950-4086:1:exon
so has part: feature:4191-4346:1:exon
so has part: feature:4442-4588:1:exon
so has part: feature:4830-4976:1:exon
so has part: feature:5155-5280:1:exon
so has part: feature:5401-5485:1:exon
so has part: feature:5583-5687:1:exon
so has part: feature:5804-5906:1:exon
so has part: feature:6001-6128:1:exon
so has part: feature:6344-6449:1:exon
so has part: feature:6634-6792:1:exon
so has part: feature:7059-7227:1:exon
so has part: feature:7306-7509:1:exon
so has part: feature:8669-8764:1:exon
so has part: feature:9154-9297:1:exon

XP_035164698.1
type: Protein
SIO_000068: ncbiprotein

position:9297:1
position: 9297
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:628-914:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:995-1015:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:1604-1720:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:1843-1912:1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:2026-2094:1:exon

urn:…
SIO_000300: 6
SIO_000628: feature:2179-2244:1:exon

urn:…
SIO_000300: 7
SIO_000628: feature:2412-2442:1:exon

urn:…
SIO_000300: 8
SIO_000628: feature:2509-2577:1:exon

urn:…
SIO_000300: 9
SIO_000628: feature:2680-2931:1:exon

urn:…
SIO_000300: 10
SIO_000628: feature:3030-3119:1:exon

urn:…
SIO_000300: 11
SIO_000628: feature:3206-3276:1:exon

urn:…
SIO_000300: 12
SIO_000628: feature:3409-3514:1:exon

urn:…
SIO_000300: 13
SIO_000628: feature:3764-3857:1:exon

urn:…
SIO_000300: 14
SIO_000628: feature:3950-4086:1:exon

urn:…
SIO_000300: 15
SIO_000628: feature:4191-4346:1:exon

urn:…
SIO_000300: 16
SIO_000628: feature:4442-4588:1:exon

urn:…
SIO_000300: 17
SIO_000628: feature:4830-4976:1:exon

urn:…
SIO_000300: 18
SIO_000628: feature:5155-5280:1:exon

urn:…
SIO_000300: 19
SIO_000628: feature:5401-5485:1:exon

urn:…
SIO_000300: 20
SIO_000628: feature:5583-5687:1:exon

urn:…
SIO_000300: 21
SIO_000628: feature:5804-5906:1:exon

urn:…
SIO_000300: 22
SIO_000628: feature:6001-6128:1:exon

urn:…
SIO_000300: 23
SIO_000628: feature:6344-6449:1:exon

urn:…
SIO_000300: 24
SIO_000628: feature:6634-6792:1:exon

urn:…
SIO_000300: 25
SIO_000628: feature:7059-7227:1:exon

urn:…
SIO_000300: 26
SIO_000628: feature:7306-7509:1:exon

urn:…
SIO_000300: 27
SIO_000628: feature:8669-8764:1:exon

urn:…
SIO_000300: 28
SIO_000628: feature:9154-9297:1:exon

LOC118155501
type: Gene
subclass of: SO_0000704
RO_0002162: 8884
gene: LOC118155501
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: 12621..30656
location: region:12621-30656:1
so has part: feature:12621-30656:1:exon
subclass of: SO_0000010

118155501
type: Gene
SIO_000068: ncbigene

position:12621:1
position: 12621
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:30656:1
position: 30656
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:12621-30656:1:exon

LOC118155501
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: LOC118155501
product: BRD4-interacting chromatin-remodeling complex-associated protein-like, transcript variant X3
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 29 samples with support for all annotated introns
transcript id: XM_035308806.1
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12621..12744,12851..12896,13249..13291,13634..13699,14492..16400,30536..30656)
location: region:12621-30656:1
so has part: feature:12621-12744:1:exon
so has part: feature:12851-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:13634-13699:1:exon
so has part: feature:14492-16400:1:exon
so has part: feature:30536-30656:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:12621-12744:1:exon

position:12744:1
position: 12744
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:12851-12896:1:exon

position:12851:1
position: 12851
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:12896:1
position: 12896
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:13249-13291:1:exon

position:13249:1
position: 13249
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:13291:1
position: 13291
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:13634-13699:1:exon

position:13634:1
position: 13634
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:13699:1
position: 13699
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 5
SIO_000628: feature:14492-16400:1:exon

position:14492:1
position: 14492
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:16400:1
position: 16400
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 6
SIO_000628: feature:30536-30656:1:exon

position:30536:1
position: 30536
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

LOC118155501
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: LOC118155501
product: BRD4-interacting chromatin-remodeling complex-associated protein-like, transcript variant X1
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 61 samples with support for all annotated introns
transcript id: XM_035308804.1
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12621..12744,12851..12896,13249..13291,13634..13699,14492..16522)
location: region:12621-16522:1
so has part: feature:12621-12744:1:exon
so has part: feature:12851-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:13634-13699:1:exon
so has part: feature:14492-16522:1:exon

position:16522:1
position: 16522
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:12621-12744:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:12851-12896:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:13249-13291:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:13634-13699:1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:14492-16522:1:exon

LOC118155501
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: LOC118155501
product: BRD4-interacting chromatin-remodeling complex-associated protein-like, transcript variant X2
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 54 samples with support for all annotated introns
transcript id: XM_035308805.1
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12621..12744,12851..12896,13249..13291,14492..16522)
location: region:12621-16522:1
so has part: feature:12621-12744:1:exon
so has part: feature:12851-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:14492-16522:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:12621-12744:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:12851-12896:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:13249-13291:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:14492-16522:1:exon

LOC118155501
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: LOC118155501
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: BRD4-interacting chromatin-remodeling complex-associated protein-like isoform X3
translation: MDDEDGRCLLDVICDPQALNDFLHGSEKIDSDDLLDNTGDAASAFFEGAGLHVQEPSGNHLNAEQSQPAPSVDLDFLEDDILGSPAGAAAALPSSEQPCDILQQSLQEANITEQTLEAEAELDLGSFQLPTLQPVVQAASDGAPQIFSGGADLIGLQQPAVLTHQALVQQPVGADVVNKAISVQPFLQQVGLGNVTIQPISNLQGLPNGSPGGTLGIAPIQVVGQQVMAINQPAQQIIAKQVQPSPVAAMPVGSYIAQPAPEQQQVTLASAGVSPQGAGLVIQKNLPAVATTTLNGSSMFGGVAGAAASQPLTVTSNLSSPLVQAQNVIIHRTPTPIQPKPAGVLQQKLYQITPKPFAPNNATLTIQNEAALQQQKAQQNLTFMTGKAGQNVVLSGFPQGLPANVFKQPPPQQPALSKPMSVHLLNQGSSIVIPAQHVPQAVLQGQNQFLLPGQLAGASAVQLPQQLSALPANMGGQILTASHASGQAHIITSPGPGGQLIANQALPAQILTNQNIAGQLNLGQVLTSQNAHGTAHILSAPIQLQPGQVGQPALFQMPVSLAGSLTTQSQPAVAASLPGGAIGQPGQTVIQGVTLPSQVAMLNAAENLGPAVSIQPPAAAASSQSPGLVQPQPASAAGLLPGAEQSSSILTVQAAPQPPAAPPPLQLSVQPPPPAPPPAPAQPSPGCKKCGV
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12856..12896,13249..13291,13634..13699,14492..16400,30536..30555)
location: region:12856-30555:1
so has part: feature:12856-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:13634-13699:1:exon
so has part: feature:14492-16400:1:exon
so has part: feature:30536-30555:1:exon

XP_035164697.1
type: Protein
SIO_000068: ncbiprotein

position:12856:1
position: 12856
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:30555:1
position: 30555
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:12856-12896:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:13249-13291:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:13634-13699:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:14492-16400:1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:30536-30555:1:exon

LOC118155501
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: LOC118155501
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: BRD4-interacting chromatin-remodeling complex-associated protein-like isoform X1
translation: MDDEDGRCLLDVICDPQALNDFLHGSEKIDSDDLLDNTGDAASAFFEGAGLHVQEPSGNHLNAEQSQPAPSVDLDFLEDDILGSPAGAAAALPSSEQPCDILQQSLQEANITEQTLEAEAELDLGSFQLPTLQPVVQAASDGAPQIFSGGADLIGLQQPAVLTHQALVQQPVGADVVNKAISVQPFLQQVGLGNVTIQPISNLQGLPNGSPGGTLGIAPIQVVGQQVMAINQPAQQIIAKQVQPSPVAAMPVGSYIAQPAPEQQQVTLASAGVSPQGAGLVIQKNLPAVATTTLNGSSMFGGVAGAAASQPLTVTSNLSSPLVQAQNVIIHRTPTPIQPKPAGVLQQKLYQITPKPFAPNNATLTIQNEAALQQQKAQQNLTFMTGKAGQNVVLSGFPQGLPANVFKQPPPQQPALSKPMSVHLLNQGSSIVIPAQHVPQAVLQGQNQFLLPGQLAGASAVQLPQQLSALPANMGGQILTASHASGQAHIITSPGPGGQLIANQALPAQILTNQNIAGQLNLGQVLTSQNAHGTAHILSAPIQLQPGQVGQPALFQMPVSLAGSLTTQSQPAVAASLPGGAIGQPGQTVIQGVTLPSQVAMLNAAENLGPAVSIQPPAAAASSQSPGLVQPQPASAAGLLPGAEQSSSILTVQAAPQPPAAPPPLQLSVQPPPPAPPPAPAQPSPGLASSSPEKIILGQAAAAGAVISQDSMQMFLQQASSFPPGG
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12856..12896,13249..13291,13634..13699,14492..16522)
location: region:12856-16522:1
so has part: feature:12856-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:13634-13699:1:exon
so has part: feature:14492-16522:1:exon

XP_035164695.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:12856-12896:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:13249-13291:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:13634-13699:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:14492-16522:1:exon

LOC118155501
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: LOC118155501
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: BRD4-interacting chromatin-remodeling complex-associated protein-like isoform X2
translation: MDDEDGRCLLDVICDPQALNDFLHGSEKLHVQEPSGNHLNAEQSQPAPSVDLDFLEDDILGSPAGAAAALPSSEQPCDILQQSLQEANITEQTLEAEAELDLGSFQLPTLQPVVQAASDGAPQIFSGGADLIGLQQPAVLTHQALVQQPVGADVVNKAISVQPFLQQVGLGNVTIQPISNLQGLPNGSPGGTLGIAPIQVVGQQVMAINQPAQQIIAKQVQPSPVAAMPVGSYIAQPAPEQQQVTLASAGVSPQGAGLVIQKNLPAVATTTLNGSSMFGGVAGAAASQPLTVTSNLSSPLVQAQNVIIHRTPTPIQPKPAGVLQQKLYQITPKPFAPNNATLTIQNEAALQQQKAQQNLTFMTGKAGQNVVLSGFPQGLPANVFKQPPPQQPALSKPMSVHLLNQGSSIVIPAQHVPQAVLQGQNQFLLPGQLAGASAVQLPQQLSALPANMGGQILTASHASGQAHIITSPGPGGQLIANQALPAQILTNQNIAGQLNLGQVLTSQNAHGTAHILSAPIQLQPGQVGQPALFQMPVSLAGSLTTQSQPAVAASLPGGAIGQPGQTVIQGVTLPSQVAMLNAAENLGPAVSIQPPAAAASSQSPGLVQPQPASAAGLLPGAEQSSSILTVQAAPQPPAAPPPLQLSVQPPPPAPPPAPAQPSPGLASSSPEKIILGQAAAAGAVISQDSMQMFLQQASSFPPGG
SIO_010081: LOC118155501
subclass of: SO_0000673
so part of: LOC118155501
location: join(12856..12896,13249..13291,14492..16522)
location: region:12856-16522:1
so has part: feature:12856-12896:1:exon
so has part: feature:13249-13291:1:exon
so has part: feature:14492-16522:1:exon

XP_035164696.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:12856-12896:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:13249-13291:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:14492-16522:1:exon

LOC118155499
type: Gene
subclass of: SO_0000704
RO_0002162: 8884
gene: LOC118155499
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: 16774..21148
location: region:16774-21148:1
so has part: feature:16774-21148:1:exon
subclass of: SO_0000010

118155499
type: Gene
SIO_000068: ncbigene

position:16774:1
position: 16774
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:21148:1
position: 21148
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:16774-21148:1:exon

LOC118155499
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: LOC118155499
product: protein fosB-like
exception: unclassified transcription discrepancy
note: The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 89% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_035308802.1
SIO_010081: LOC118155499
subclass of: SO_0000673
so part of: LOC118155499
location: join(16774..16787,17999..18438,18558..18665,20728..21148)
location: region:16774-21148:1
so has part: feature:16774-16787:1:exon
so has part: feature:17999-18438:1:exon
so has part: feature:18558-18665:1:exon
so has part: feature:20728-21148:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:16774-16787:1:exon

position:16787:1
position: 16787
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:17999-18438:1:exon

position:17999:1
position: 17999
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:18438:1
position: 18438
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:18558-18665:1:exon

position:18558:1
position: 18558
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:18665:1
position: 18665
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:20728-21148:1:exon

position:20728:1
position: 20728
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

LOC118155499
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: LOC118155499
exception: unclassified translation discrepancy
note: The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: LOW QUALITY PROTEIN: protein fosB-like
translation: MTIRRAHEARAGAIEVAAASLVCSQRAPTLPGEGGGHPRVLPGAVPQHPDRAPSPQECSGLGDMPGSFVPTVTAITTSQDLQWLVQPTLISSVAQSQPPGGPMAHPPPTTAPVDPYDLPGPSYSTPGMGGFPSAPPARPSRARPRRSREETLTPEEEEKRRVRRERNKLAAAKCRNRRRELTDRLQAETDQLEEEKAELESEIAELQKEKERLEFVLVAHAPACKLPFEDAGPLGAGPAEVSTLGKEEPPGPVAFPFQPGAQGPFPSCCFAPGAPPVPPNPSYTSSFVFTYPEGATCGASHQRSSSSDQSSDSLNSPSLLAL
SIO_010081: LOC118155499
subclass of: SO_0000673
so part of: LOC118155499
location: join(16774..16787,17999..18438,18558..18665,20728..21135)
location: region:16774-21135:1
so has part: feature:16774-16787:1:exon
so has part: feature:17999-18438:1:exon
so has part: feature:18558-18665:1:exon
so has part: feature:20728-21135:1:exon

XP_035164693.1
type: Protein
SIO_000068: ncbiprotein

position:21135:1
position: 21135
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:16774-16787:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:17999-18438:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:18558-18665:1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:20728-21135:1:exon

ARHGAP35
type: Gene
subclass of: SO_0000704
RO_0002162: 8884
gene: ARHGAP35
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: complement(34482..45011)
location: region:34482-45011:-1
so has part: feature:34482-45011:-1:exon
subclass of: SO_0000010

118155500
type: Gene
SIO_000068: ncbigene

position:34482:-1
position: 34482
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:45011:-1
position: 45011
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:34482-45011:-1:exon

ARHGAP35
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 8884
gene: ARHGAP35
product: Rho GTPase activating protein 35
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 69 samples with support for all annotated introns
transcript id: XM_035308803.1
SIO_010081: ARHGAP35
subclass of: SO_0000673
so part of: ARHGAP35
location: complement(join(34482..34856,34951..35056,35583..35714,36525..36602,37756..37900,41118..45011))
location: region:34482-45011:-1
so has part: feature:41118-45011:-1:exon
so has part: feature:37756-37900:-1:exon
so has part: feature:36525-36602:-1:exon
so has part: feature:35583-35714:-1:exon
so has part: feature:34951-35056:-1:exon
so has part: feature:34482-34856:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:41118-45011:-1:exon

position:41118:-1
position: 41118
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:37756-37900:-1:exon

position:37756:-1
position: 37756
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:37900:-1
position: 37900
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:36525-36602:-1:exon

position:36525:-1
position: 36525
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:36602:-1
position: 36602
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:35583-35714:-1:exon

position:35583:-1
position: 35583
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:35714:-1
position: 35714
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 5
SIO_000628: feature:34951-35056:-1:exon

position:34951:-1
position: 34951
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:35056:-1
position: 35056
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 6
SIO_000628: feature:34482-34856:-1:exon

position:34856:-1
position: 34856
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

ARHGAP35
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 8884
gene: ARHGAP35
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: rho GTPase-activating protein 35
translation: MMMARKQDVRIPTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVVRSLEDCAECKMHVVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLCIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFALSKKNLQVVETSARSNVNIDLAFNTLVQLVDKSRGKTKIIPYFEALKQQSQQIAAAKDKYEWLVSRIVKNHNETWSNVSRKMQASAEYQEYVYLEGTQKAKKLFLQHVHRLKQEHIERRRKIYLAKLPQAFEALIPDLDEIDHLSCVKAEKLLEAKPDFLKWFVVLEETPWDATSHIDNMENERIPFDLMETQPAEQLYEAHLEKLRNERKRAEMRRAFKENLETSPFITPGKPWEEARSFIMNEDFYMWLEESIYMDIYSKHQKQIIEKAKEEFQELLLEYSELFYELELDAKPSKEKMGVIQDVLGEEQRFKALQKLQAERDALILKHIHFVYHPTKETCPSCPDCIDSKIEHLVSSCFIRPPERNQKNLLSDANIDRINLVILGKDGLARELANEIRALCTNDDKYVIEGKMYELSLRPIEGNVRLPVNAFQTPTFQPHGCLCLYNSKESLSYVVESIEKSRESTMGRRENHLAHLPLTLMLVNKRGDTSGETLHSLVQQGQQIASKLQCVFLDPASAGIAYGRNINEKQISQVLKGLLDSKRNLNLVSSTSSIKDLADVDLRIVMCLMCGDPFDADDLLAPILQSQTYRPSPCGSSSSILLELAVGPHRRRLELSLLSYHSSFSVRKSRLVHGYIVFYAAKRKASLAMLRAFLCEVQDIIPVQLVALTDGAVDILDNDLSREQLTEGEEIAQEIDGKFTAIPCSQPQHKLEIFHSFFKDVVEKKNIIEATHMYDNVAEACSTTEEVFNSPRAGSPLCNSNLQDSEEDIEPPTYSPFREDPAVPALPKDHSKLSMELEGNDGLSFISVMSTFESKLNNKVPPPVKPKPPVHFDITKGDLSYLEQGHRDGQRKSVSSSSWLPTDSFDPSDYAEPMDAVVKPRNEEENIYSVPHDSTQGKIITIRNINKTQSNGSGNGSDSEMDTSSLERGRKVSAVSKPVLYRTRCTRLGRFASYRTSFSVGSDDELGPIRKKEEDQSSQGYKGDNAVIPYESADGEDPRRRNILRSLRRTTKKPKPKPRPSITKAMWESNYFGVPLSSVVTAEKPIPIFIERCIEYIEATGLSTEGIYRVSGNKSEMESLQRQFDQDHSLDLAEKDFTVNTVAGAMKSFFSELPDPLVPYNMQIELVEAHKINDREQKLHALKEVLRKFPKENYEVFKYVIGHLNKVSHNHRVNLMTSENLSICFWPTLMRPDFSTMDALTATRTYQTIIELFIQQCPFFFYNRPILDTPSAAPGSPSAAPTGAPFLPAAPGTAQPSPPQTPPPSPQSPVQPLLPAPLHAEQHSL
SIO_010081: ARHGAP35
subclass of: SO_0000673
so part of: ARHGAP35
location: complement(join(34496..34856,34951..35056,35583..35714,36525..36602,37756..37900,41118..44813))
location: region:34496-44813:-1
so has part: feature:41118-44813:-1:exon
so has part: feature:37756-37900:-1:exon
so has part: feature:36525-36602:-1:exon
so has part: feature:35583-35714:-1:exon
so has part: feature:34951-35056:-1:exon
so has part: feature:34496-34856:-1:exon

XP_035164694.1
type: Protein
SIO_000068: ncbiprotein

position:34496:-1
position: 34496
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:44813:-1
position: 44813
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:41118-44813:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:37756-37900:-1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:36525-36602:-1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:35583-35714:-1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:34951-35056:-1:exon

urn:…
SIO_000300: 6
SIO_000628: feature:34496-34856:-1:exon