Tachyglossus aculeatus isolate mTacAcu1 chromosome Y1, mTacAcu1.pri, whole genome shotgun sequence.
type: Entry
definition: Tachyglossus aculeatus isolate mTacAcu1 chromosome Y1, mTacAcu1.pri, whole genome shotgun sequence.
sequence version: NC_052093.1
sequence date: 2021-01-06
sequence: sequence
division: CON
label: NC_052093.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA687514
dblink: SAMN12634963
keyword: WGS
keyword: RefSeq
source: Tachyglossus aculeatus (Australian echidna)
organism: Tachyglossus aculeatus
taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Monotremata; Tachyglossidae; Tachyglossus.
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCM027627.1.\nAssembly name: mTacAcu1.pri\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Vertebrate Genomes Project on\n2020/12/09. The original whole-genome shotgun project has the\naccession JADRJE000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Vertebrate Genomes Project\nAssembly Date :: 26-OCT-2020\nAssembly Method :: FALCON v. falcon-2018.31.08-03.06;\n FALCON-Unzip v. 6.0.0.47841; purge_dups\n v. github\n ca23030ccf4254dfd2d3a5ea90d0eed41c24f88b\n ca23030ccf4254dfd2d3a5ea90d0eed41c24f88b;\n Scaff10x v. 4.1.0; Bionano Solve v.\n 3.2.1_04122018; Salsa2 HiC v. 2.2; Polish\n pbgcpp v. 1.9.0; Longranger Align v.\n 2.2.2; freebayes v. 1.3.1; gEVAL manual\n curation v. 2020-09-17; Manual Curation\n v. 2020-10-26; VGP assembly pipeline v.\n 1.6\nAssembly Name :: mTacAcu1.pri\nDiploid :: Principal pseudohaplotype\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 58.29x\nSequencing Technology :: PacBio Sequel I CLR; Illumina NovaSeq;\n Bionano Genomics DLS; Phase Genomics\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Tachyglossus aculeatus Annotation\n Release 100\nAnnotation Version :: 100\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.5\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000340
sequence length: 348640
topology: linear
so has quality: SO_0000987
location: 1..348640
location: region:1-348640:1
RO_0002162: 9261

NC_052093
type: RefSeq
SIO_000068: refseq

PRJNA687514
type: BioProject
SIO_000068: bioproject

SAMN12634963
type: BioSample
SIO_000068: biosample

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

position:348640:1
position: 348640
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-348640:1:source
so part of: sequence
organism: Tachyglossus aculeatus
mol type: genomic DNA
isolate: mTacAcu1
chromosome: Y1
sex: male
tissue type: liver
dev stage: adult
country: Australia: Upper Barnard River, New South Wales
lat lon: 31.647305 S 151.500011 E
collected by: Tasman Daish, Frank Grutzner

9261
type: Taxonomy
SIO_000068: taxonomy

LOC119946652
type: Gene
subclass of: SO_0000704
RO_0002162: 9261
gene: LOC119946652
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: 179..6343
location: region:179-6343:1
so has part: feature:179-6343:1:exon
subclass of: SO_0000011

119946652
type: Gene
SIO_000068: ncbigene

position:179:1
position: 179
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6343:1
position: 6343
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:179-6343:1:exon

LOC119946652
type: Non Coding RNA
subclass of: SO_0000655
RO_0002162: 9261
nc RNA class: lncRNA
gene: LOC119946652
product: uncharacterized LOC119946652, transcript variant X3
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 1 sample with support for all annotated introns
transcript id: XR_005456448.1
SIO_010081: LOC119946652
subclass of: SO_0000673
so part of: LOC119946652
location: join(179..868,2196..2282,4837..5670,6137..6343)
location: region:179-6343:1
so has part: feature:179-868:1:exon
so has part: feature:2196-2282:1:exon
so has part: feature:4837-5670:1:exon
so has part: feature:6137-6343:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:179-868:1:exon

position:868:1
position: 868
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:2196-2282:1:exon

position:2196:1
position: 2196
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2282:1
position: 2282
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:4837-5670:1:exon

position:4837:1
position: 4837
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5670:1
position: 5670
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:6137-6343:1:exon

position:6137:1
position: 6137
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

LOC119946652
type: Non Coding RNA
subclass of: SO_0000655
RO_0002162: 9261
nc RNA class: lncRNA
gene: LOC119946652
product: uncharacterized LOC119946652, transcript variant X1
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 2 samples with support for all annotated introns
transcript id: XR_005456446.1
SIO_010081: LOC119946652
subclass of: SO_0000673
so part of: LOC119946652
location: join(1860..2282,4837..5670,6137..6343)
location: region:1860-6343:1
so has part: feature:1860-2282:1:exon
so has part: feature:4837-5670:1:exon
so has part: feature:6137-6343:1:exon

position:1860:1
position: 1860
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1860-2282:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:4837-5670:1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:6137-6343:1:exon

LOC119946652
type: Non Coding RNA
subclass of: SO_0000655
RO_0002162: 9261
nc RNA class: lncRNA
gene: LOC119946652
product: uncharacterized LOC119946652, 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 1 sample with support for all annotated introns
transcript id: XR_005456447.1
SIO_010081: LOC119946652
subclass of: SO_0000673
so part of: LOC119946652
location: join(1860..2282,4837..5049,5617..5670,6137..6343)
location: region:1860-6343:1
so has part: feature:1860-2282:1:exon
so has part: feature:4837-5049:1:exon
so has part: feature:5617-5670:1:exon
so has part: feature:6137-6343:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:1860-2282:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:4837-5049:1:exon

position:5049:1
position: 5049
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:5617-5670:1:exon

position:5617:1
position: 5617
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:6137-6343:1:exon

LOC119946650
type: Gene
subclass of: SO_0000704
RO_0002162: 9261
gene: LOC119946650
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: complement(33878..35003)
location: region:33878-35003:-1
so has part: feature:33878-35003:-1:exon
subclass of: SO_0000010

119946650
type: Gene
SIO_000068: ncbigene

position:33878:-1
position: 33878
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:35003:-1
position: 35003
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:33878-35003:-1:exon

LOC119946650
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 9261
gene: LOC119946650
product: heterogeneous nuclear ribonucleoprotein A0-like
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 Proteins, and 90% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_038768067.1
SIO_010081: LOC119946650
subclass of: SO_0000673
so part of: LOC119946650
location: complement(33878..35003)
location: region:33878-35003:-1
so has part: feature:33878-35003:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:33878-35003:-1:exon

LOC119946650
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 9261
gene: LOC119946650
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: heterogeneous nuclear ribonucleoprotein A0-like
translation: MENSQLCKLFIGGLNVQTSESGLRGHFEAFGTLTDCVVVVNPQTKRSRCFGFVTYSNVEEADAAMAASPHAVDGNTVELKRAVSREDSARPGAHAKVKKLFVGGLKGDVAEDDLVEHFSQFGPVEKAEIIADKQSGKKRGFGFVYFQSHDAADKAAVVKFHPIHGHRVEVKKAVPKEDIHPGGGGGGGPRPGRGGRGGRGRGGGGGRDQNGLSKGGGGGYNSYDGYTRGGGGYNAYSGGGSSYGGGDHGNGFGGFGSYSQHQSSYGPMKSGGGGGGGSWGGRSNSGPYRGGCGGGGGGYGGSSF
SIO_010081: LOC119946650
subclass of: SO_0000673
so part of: LOC119946650
location: complement(33878..34792)
location: region:33878-34792:-1
so has part: feature:33878-34792:-1:exon

XP_038623995.1
type: Protein
SIO_000068: ncbiprotein

position:34792:-1
position: 34792
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:33878-34792:-1:exon

LOC119946651
type: Gene
subclass of: SO_0000704
RO_0002162: 9261
gene: LOC119946651
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: complement(183006..198034)
location: region:183006-198034:-1
so has part: feature:183006-198034:-1:exon
subclass of: SO_0000010

119946651
type: Gene
SIO_000068: ncbigene

position:183006:-1
position: 183006
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:198034:-1
position: 198034
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:183006-198034:-1:exon

LOC119946651
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 9261
gene: LOC119946651
product: mothers against decapentaplegic homolog 5-like, transcript variant X1
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 35 Proteins, and 14% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_038768069.1
SIO_010081: LOC119946651
subclass of: SO_0000673
so part of: LOC119946651
location: complement(join(183006..183149,184691..184947,187048..187269,190167..190286,195256..195507,197632..198034))
location: region:183006-198034:-1
so has part: feature:197632-198034:-1:exon
so has part: feature:195256-195507:-1:exon
so has part: feature:190167-190286:-1:exon
so has part: feature:187048-187269:-1:exon
so has part: feature:184691-184947:-1:exon
so has part: feature:183006-183149:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:197632-198034:-1:exon

position:197632:-1
position: 197632
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:195256-195507:-1:exon

position:195256:-1
position: 195256
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:195507:-1
position: 195507
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:190167-190286:-1:exon

position:190167:-1
position: 190167
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:190286:-1
position: 190286
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:187048-187269:-1:exon

position:187048:-1
position: 187048
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:187269:-1
position: 187269
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 5
SIO_000628: feature:184691-184947:-1:exon

position:184691:-1
position: 184691
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:184947:-1
position: 184947
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 6
SIO_000628: feature:183006-183149:-1:exon

position:183149:-1
position: 183149
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

LOC119946651
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 9261
gene: LOC119946651
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: mothers against decapentaplegic homolog 5-like isoform X1
translation: MMFMASLFSFNSPAVKLLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQRSKCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLDICEFPFGSKQKEVCINPYHYKRVESPVLPPVLVPRHSEFNPQHSLLVQFRNLSHNEPHMPQNATFPDSFQQPNNIAFPLSPNSPYPPSPASSMYPSSPASSGLASPFQLPADTPPPAYMTPDDQMGQDNFQSMDTSNSVIPQIMPNTVNRDVQPVVYEEPKHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKSRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFEAVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPLNPISSVS
SIO_010081: LOC119946651
subclass of: SO_0000673
so part of: LOC119946651
location: complement(join(183006..183149,184691..184947,187048..187269,190167..190286,195256..195507,197632..198034))
location: region:183006-198034:-1
so has part: feature:197632-198034:-1:exon
so has part: feature:195256-195507:-1:exon
so has part: feature:190167-190286:-1:exon
so has part: feature:187048-187269:-1:exon
so has part: feature:184691-184947:-1:exon
so has part: feature:183006-183149:-1:exon

XP_038623997.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:197632-198034:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:195256-195507:-1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:190167-190286:-1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:187048-187269:-1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:184691-184947:-1:exon

urn:…
SIO_000300: 6
SIO_000628: feature:183006-183149:-1:exon

LOC119946651
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 9261
gene: LOC119946651
product: mothers against decapentaplegic homolog 5-like, transcript variant X2
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 16 Proteins, and 16% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_038768070.1
SIO_010081: LOC119946651
subclass of: SO_0000673
so part of: LOC119946651
location: complement(join(183006..183149,184691..184947,187048..187269,195256..195507,197632..198031))
location: region:183006-198031:-1
so has part: feature:197632-198031:-1:exon
so has part: feature:195256-195507:-1:exon
so has part: feature:187048-187269:-1:exon
so has part: feature:184691-184947:-1:exon
so has part: feature:183006-183149:-1:exon

position:198031:-1
position: 198031
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:197632-198031:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:195256-195507:-1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:187048-187269:-1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:184691-184947:-1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:183006-183149:-1:exon

LOC119946651
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 9261
gene: LOC119946651
note: Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: mothers against decapentaplegic homolog 5-like isoform X2
translation: MFMASLFSFNSPAVKLLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQRSKCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLDICEFPFGSKQKEVCINPYHYKRVESPVLPPVLVPRHSEFNPQHSLLVQFRNLSHNEPHMPQNATFPDSFQQPNNIAFPLSPNSPYPPSPASSMYPSSPASSGLASPFQLPDVQPVVYEEPKHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKSRFCLGLLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNNQEFAQLLAQSVNHGFEAVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPLNPISSVS
SIO_010081: LOC119946651
subclass of: SO_0000673
so part of: LOC119946651
location: complement(join(183006..183149,184691..184947,187048..187269,195256..195507,197632..198031))
location: region:183006-198031:-1
so has part: feature:197632-198031:-1:exon
so has part: feature:195256-195507:-1:exon
so has part: feature:187048-187269:-1:exon
so has part: feature:184691-184947:-1:exon
so has part: feature:183006-183149:-1:exon

XP_038623998.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:197632-198031:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:195256-195507:-1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:187048-187269:-1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:184691-184947:-1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:183006-183149:-1:exon