Anolis carolinensis linkage group d, AnoCar2.0, whole genome shotgun sequence.
type: Entry
definition: Anolis carolinensis linkage group d, AnoCar2.0, whole genome shotgun sequence.
sequence version: NC_014785.1
sequence date: 2016-05-31
sequence: sequence
division: CON
label: NC_014785.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA60547
dblink: SAMN02981230
keyword: WGS
keyword: RefSeq
source: Anolis carolinensis (green anole)
organism: Anolis carolinensis
taxonomy: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Lepidosauria; Squamata; Bifurcata; Unidentata; Episquamata; Toxicofera; Iguania; Dactyloidae; Anolis.
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCM000946.1.\nAssembly Name: AnoCar2.0\nThe genomic sequence for this RefSeq record is from the whole\ngenome assembly released by the Broad Institute as AnoCar2.0 in\nDecember 2009 (see http://www.broadinstitute.org/models/anole). The\noriginal whole genome shotgun project has the accession\nAAWZ00000000.2.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Arachne v. 3.0.0\nAssembly Name :: AnoCar2.0\nGenome Coverage :: 7.10x\nSequencing Technology :: ABI\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Version :: Anolis carolinensis Annotation\n Release 102\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 7.0\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000018
sequence length: 1094478
topology: linear
so has quality: SO_0000987
location: 1..1094478
location: region:1-1094478:1
RO_0002162: 28377

NC_014785
type: RefSeq
SIO_000068: refseq

PRJNA60547
type: BioProject
SIO_000068: bioproject

SAMN02981230
type: BioSample
SIO_000068: biosample

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

position:1094478:1
position: 1094478
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-1094478:1:source
so part of: sequence
organism: Anolis carolinensis
mol type: genomic DNA
country: USA
linkage group: d

28377
type: Taxonomy
SIO_000068: taxonomy

LOC100560913
type: Gene
subclass of: SO_0000704
RO_0002162: 28377
gene: LOC100560913
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: <12981..19306
location: region:12981-19306:1
so has part: feature:12981-19306:1:exon
subclass of: SO_0000010

100560913
type: Gene
SIO_000068: ncbigene

position:12981:1
position: 12981
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:19306:1
position: 19306
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:12981-19306:1:exon

LOC100560913
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 28377
gene: LOC100560913
product: cadherin-8-like
inference: similar to RNA sequence, mRNA (same species):INSD:GAFK01058431.1
exception: annotated by transcript or proteomic data
note: The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 968 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 17 samples with support for all annotated introns
transcript id: XM_003222939.3
SIO_010081: LOC100560913
subclass of: SO_0000673
so part of: LOC100560913
location: join(<12981..13232,17036..19306)
location: region:12981-19306:1
so has part: feature:12981-13232:1:exon
so has part: feature:17036-19306:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:12981-13232:1:exon

position:13232:1
position: 13232
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:17036-19306:1:exon

position:17036:1
position: 17036
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

LOC100560913
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28377
gene: LOC100560913
inference: similar to RNA sequence, mRNA (same species):INSD:GAFK01058431.1
exception: annotated by transcript or proteomic data
note: The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: added 892 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 3
product: cadherin-8-like
translation: MLQAGARVFSLLGLHHASSHALFPGLYHFSVLEDIAIGEPVGRVKANDLDIGENAKSSYDIIEGDGMDIFEITSDSQTQEGIIRLRKPLDFENKRSYTLKVEASNIRIDPRFISMGPFKDTATIKIVVEDADEPPIFSSPTYLLEVHENAAINSVIGQVTAHDPDVSSSSIRFSIDRNTDLERQFNINTQDGRITLATPLDRETSMWHNITIVATEDRNPSQISRVPVAIKVLDVNDNAPELASGNEAYLCENGKTGKVIHTMRAIDKDDPKNGHYFIYNLPPEMINNPNFTIEKNQDNTLNILTKHNGFSRQKQEVYFLPIIISDSGNPPMSSTSTLTIKVCGCSSDGLAQSCNAEAYVLPIGLSMGALIAILACIILLLVIVVLFVTLRRHKNEPLIIKDDEDVRENIIRYDDEGGGEEDTEAFDIATLQNPDGINGFLPRKDIKPDLQFMPRQGLAPVPNGVDVDEFINVRLHEADNDPTAPPYDSIQIYGYEGRGSVAGSLSSLESSTSDLDQNFDYLSEWGPRFKRLGELYSVGESDKET
SIO_010081: LOC100560913
subclass of: SO_0000673
so part of: LOC100560913
location: join(<12981..13232,17036..17529)
location: region:12981-17529:1
so has part: feature:12981-13232:1:exon
so has part: feature:17036-17529:1:exon

XP_003222987.2
type: Protein
SIO_000068: ncbiprotein

position:17529:1
position: 17529
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:12981-13232:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:17036-17529:1:exon

adamts18
type: Gene
subclass of: SO_0000704
RO_0002162: 28377
gene: adamts18
note: Derived by automated computational analysis using gene prediction method: Gnomon.
so part of: sequence
location: complement(918864..1026631)
location: region:918864-1026631:-1
so has part: feature:918864-1026631:-1:exon
subclass of: SO_0000010

100561111
type: Gene
SIO_000068: ncbigene

position:918864:-1
position: 918864
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1026631:-1
position: 1026631
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:918864-1026631:-1:exon

adamts18
type: Messenger RNA
subclass of: SO_0000234
RO_0002162: 28377
gene: adamts18
product: ADAM metallopeptidase with thrombospondin type 1 motif 18
inference: similar to RNA sequence (same species):INSD:GAGA01126315.1
exception: annotated by transcript or proteomic data
note: The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 96 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 96% coverage of the annotated genomic feature by RNAseq alignments
transcript id: XM_016994773.1
SIO_010081: adamts18
subclass of: SO_0000673
so part of: adamts18
location: complement(join(918864..919492,922978..923125,927302..927514,932791..932982,934522..934726,942813..942939,948295..948436,952719..952963,954619..954742,958951..959203,973151..>973299,977217..977370,980257..980394,987530..987635,989909..990068,991409..991492,993598..993797,1000522..1000678,1023905..1024221,1026400..1026487,1026578..1026631))
location: region:918864-1026631:-1
so has part: feature:1026578-1026631:-1:exon
so has part: feature:1026400-1026487:-1:exon
so has part: feature:1023905-1024221:-1:exon
so has part: feature:1000522-1000678:-1:exon
so has part: feature:993598-993797:-1:exon
so has part: feature:991409-991492:-1:exon
so has part: feature:989909-990068:-1:exon
so has part: feature:987530-987635:-1:exon
so has part: feature:980257-980394:-1:exon
so has part: feature:977217-977370:-1:exon
so has part: feature:973151-973299:-1:exon
so has part: feature:958951-959203:-1:exon
so has part: feature:954619-954742:-1:exon
so has part: feature:952719-952963:-1:exon
so has part: feature:948295-948436:-1:exon
so has part: feature:942813-942939:-1:exon
so has part: feature:934522-934726:-1:exon
so has part: feature:932791-932982:-1:exon
so has part: feature:927302-927514:-1:exon
so has part: feature:922978-923125:-1:exon
so has part: feature:918864-919492:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:1026578-1026631:-1:exon

position:1026578:-1
position: 1026578
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1026400-1026487:-1:exon

position:1026400:-1
position: 1026400
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1026487:-1
position: 1026487
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 3
SIO_000628: feature:1023905-1024221:-1:exon

position:1023905:-1
position: 1023905
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1024221:-1
position: 1024221
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 4
SIO_000628: feature:1000522-1000678:-1:exon

position:1000522:-1
position: 1000522
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1000678:-1
position: 1000678
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 5
SIO_000628: feature:993598-993797:-1:exon

position:993598:-1
position: 993598
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:993797:-1
position: 993797
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 6
SIO_000628: feature:991409-991492:-1:exon

position:991409:-1
position: 991409
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:991492:-1
position: 991492
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 7
SIO_000628: feature:989909-990068:-1:exon

position:989909:-1
position: 989909
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:990068:-1
position: 990068
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 8
SIO_000628: feature:987530-987635:-1:exon

position:987530:-1
position: 987530
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:987635:-1
position: 987635
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 9
SIO_000628: feature:980257-980394:-1:exon

position:980257:-1
position: 980257
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:980394:-1
position: 980394
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 10
SIO_000628: feature:977217-977370:-1:exon

position:977217:-1
position: 977217
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:977370:-1
position: 977370
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 11
SIO_000628: feature:973151-973299:-1:exon

position:973151:-1
position: 973151
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:973299:-1
position: 973299
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 12
SIO_000628: feature:958951-959203:-1:exon

position:958951:-1
position: 958951
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:959203:-1
position: 959203
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 13
SIO_000628: feature:954619-954742:-1:exon

position:954619:-1
position: 954619
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:954742:-1
position: 954742
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 14
SIO_000628: feature:952719-952963:-1:exon

position:952719:-1
position: 952719
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:952963:-1
position: 952963
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 15
SIO_000628: feature:948295-948436:-1:exon

position:948295:-1
position: 948295
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:948436:-1
position: 948436
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 16
SIO_000628: feature:942813-942939:-1:exon

position:942813:-1
position: 942813
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:942939:-1
position: 942939
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 17
SIO_000628: feature:934522-934726:-1:exon

position:934522:-1
position: 934522
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:934726:-1
position: 934726
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 18
SIO_000628: feature:932791-932982:-1:exon

position:932791:-1
position: 932791
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:932982:-1
position: 932982
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 19
SIO_000628: feature:927302-927514:-1:exon

position:927302:-1
position: 927302
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:927514:-1
position: 927514
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 20
SIO_000628: feature:922978-923125:-1:exon

position:922978:-1
position: 922978
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:923125:-1
position: 923125
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 21
SIO_000628: feature:918864-919492:-1:exon

position:919492:-1
position: 919492
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

adamts18
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28377
gene: adamts18
inference: similar to RNA sequence (same species):INSD:GAGA01126315.1
exception: annotated by transcript or proteomic data
note: The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: added 96 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
codon start: 1
product: A disintegrin and metalloproteinase with thrombospondin motifs 18
translation: MLAKGLQLCCFCCASLAAAALPGDSSSLAGSSHDYIFVTPVEVDSSGSYISHNVLHSTRKKRTAPSSRNSLHYRFSAFGQELHLELEPSVFFSNNLMVQVFGKDGIIDSKEHEIEQCFYQGFIRNYSSSSVALSTCIGLSGLIRTQENDFLISPLPQHLAQEHNYTPPAGHHPHVLYKRTAEDKVHRYKIDYAPKPPAEETFILSDEYGSLTRLKRSPIKSQKGGTLNVETLVVADKKMLEKHNKENVTTYILTVMNMVSSLFKDGTIGSDINIVIVSLLLLEQEPGGLVINHHADQSLNSFCQWQSALVGKNGKRHDHAILLTGFDICSWKNEPCDTLGFAPISGMCSKYRSCTINEDTGLGLAFTVAHESGHNLGMIHDGEGNPCRKAEGNIMSPTLTGNNGVFSWSVCSRQYLNKFLSTSQAACLIDEPKQAGQYKYPDKLPGQIYDADTQCKWQFGAKAKLCNLSFVKDICKSLWCHKIGHRCETKFMPAAEGTPCGISMWCRRGQCVRYGDYGPKPINGQWSTWSKWMDCSRTCGVGVTYQERNCNNPKPQHGGKFCQGSSRIYQLCNTQPCPSGSPNFRAQQCAEYNSKPFRGWYYKWKPYTKVEGKSVIVPSHFFHIVTCLWKSLISCLTFQVGCDHQLGSNTTLDACGVCKGDNSTCTFFSGRYLIQHKMNDYYPIVTIPAGAYSIEVQELHMSSSYLAVRNLNKRYYLTKEWTIDWPGKFYFAGTVFEYQRSFNHPERLIASGPTNETLVFEILLQGKNPGIAWQYTFSKMINKNKIFTKRHSYMWVTVQSECSVTCGGGHLIAKAVCLQDHQTRVNSSLCGPKTKPLTETKICNGNPCPAYWSAGEWNACSRSCGGGQKSRQIQCVQKRAFQKENIVPHALCPVTTPAQIQTCNTQDCLPEWSPGPWSQCSKTCGRGVIKRDVFCKSAGPSILKILPENMCNSRTKPETQQMCVLGRCPKNDRLQWVISSWSECSVTCGPGLRRREMQCSEKSISGKLITFPPRRCRNLKKPHIELEEVCNRGACPLHHLYSRVSGWYSSPWQQCSVTCGGGVQTRMVQCLYQGQIATGCLPHQQPAMSRACNTNFCLVPEKKDDPSCVDFFAWCHLVPQHGVCNHKFYGKQCCKSCTWKN
SIO_010081: adamts18
subclass of: SO_0000673
so part of: adamts18
location: complement(join(919377..919492,922978..923125,927302..927514,932791..932982,934522..934726,942813..942939,948295..948436,952719..952963,954619..954742,958951..959203,973151..>973299,977217..977370,980257..980394,987530..987635,989909..990068,991409..991492,993598..993797,1000522..1000678,1023905..1024221,1026400..1026487,1026578..1026589))
location: region:919377-1026589:-1
so has part: feature:1026578-1026589:-1:exon
so has part: feature:1026400-1026487:-1:exon
so has part: feature:1023905-1024221:-1:exon
so has part: feature:1000522-1000678:-1:exon
so has part: feature:993598-993797:-1:exon
so has part: feature:991409-991492:-1:exon
so has part: feature:989909-990068:-1:exon
so has part: feature:987530-987635:-1:exon
so has part: feature:980257-980394:-1:exon
so has part: feature:977217-977370:-1:exon
so has part: feature:973151-973299:-1:exon
so has part: feature:958951-959203:-1:exon
so has part: feature:954619-954742:-1:exon
so has part: feature:952719-952963:-1:exon
so has part: feature:948295-948436:-1:exon
so has part: feature:942813-942939:-1:exon
so has part: feature:934522-934726:-1:exon
so has part: feature:932791-932982:-1:exon
so has part: feature:927302-927514:-1:exon
so has part: feature:922978-923125:-1:exon
so has part: feature:919377-919492:-1:exon

XP_016850262.1
type: Protein
SIO_000068: ncbiprotein

position:919377:-1
position: 919377
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1026589:-1
position: 1026589
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1026578-1026589:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1026400-1026487:-1:exon

urn:…
SIO_000300: 3
SIO_000628: feature:1023905-1024221:-1:exon

urn:…
SIO_000300: 4
SIO_000628: feature:1000522-1000678:-1:exon

urn:…
SIO_000300: 5
SIO_000628: feature:993598-993797:-1:exon

urn:…
SIO_000300: 6
SIO_000628: feature:991409-991492:-1:exon

urn:…
SIO_000300: 7
SIO_000628: feature:989909-990068:-1:exon

urn:…
SIO_000300: 8
SIO_000628: feature:987530-987635:-1:exon

urn:…
SIO_000300: 9
SIO_000628: feature:980257-980394:-1:exon

urn:…
SIO_000300: 10
SIO_000628: feature:977217-977370:-1:exon

urn:…
SIO_000300: 11
SIO_000628: feature:973151-973299:-1:exon

urn:…
SIO_000300: 12
SIO_000628: feature:958951-959203:-1:exon

urn:…
SIO_000300: 13
SIO_000628: feature:954619-954742:-1:exon

urn:…
SIO_000300: 14
SIO_000628: feature:952719-952963:-1:exon

urn:…
SIO_000300: 15
SIO_000628: feature:948295-948436:-1:exon

urn:…
SIO_000300: 16
SIO_000628: feature:942813-942939:-1:exon

urn:…
SIO_000300: 17
SIO_000628: feature:934522-934726:-1:exon

urn:…
SIO_000300: 18
SIO_000628: feature:932791-932982:-1:exon

urn:…
SIO_000300: 19
SIO_000628: feature:927302-927514:-1:exon

urn:…
SIO_000300: 20
SIO_000628: feature:922978-923125:-1:exon

urn:…
SIO_000300: 21
SIO_000628: feature:919377-919492:-1:exon

LOC100560716
type: Gene
subclass of: SO_0000704
RO_0002162: 28377
gene: LOC100560716
note: Derived by automated computational analysis using gene prediction method: Gnomon.
pseudo: true
so part of: sequence
location: complement(1076837..1077296)
location: region:1076837-1077296:-1
so has part: feature:1076837-1077296:-1:exon

100560716
type: Gene
SIO_000068: ncbigene

position:1076837:-1
position: 1076837
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1077296:-1
position: 1077296
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1076837-1077296:-1:exon

LOC100560716
type: Exon
subclass of: SO_0000147
RO_0002162: 28377
gene: LOC100560716
note: Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 17 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments
pseudo: true
SIO_010081: LOC100560716
subclass of: SO_0000673
so part of: LOC100560716
location: complement(1076837..1077296)
location: region:1076837-1077296:-1
so has part: feature:1076837-1077296:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:1076837-1077296:-1:exon