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COL9A1 collagen type IX alpha 1 chain [ Sus scrofa (pig) ]

Gene ID: 100155319, updated on 8-Mar-2024

Summary

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Official Symbol
COL9A1provided by VGNC
Official Full Name
collagen type IX alpha 1 chainprovided by VGNC
Primary source
VGNC:VGNC:109528
See related
Ensembl:ENSSSCG00000004274
Gene type
protein coding
RefSeq status
MODEL
Organism
Sus scrofa
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Expression
Biased expression in lung (RPKM 5.0), mixtures (RPKM 0.6) and 1 other tissue See more
Orthologs
human mouse all
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Genomic context

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See COL9A1 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
39
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 1 NC_010443.5 (50403355..50498356, complement)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) 1 NC_010443.4 (56676805..56773217, complement)

Chromosome 1 - NC_010443.5Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC110260294 Neighboring gene collagen type XIX alpha 1 chain Neighboring gene 60S ribosomal protein L32 pseudogene Neighboring gene family with sequence similarity 135 member A Neighboring gene small ArfGAP 1 Neighboring gene beta-1,3-glucuronyltransferase 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Transcriptome data used for gene annotation
  • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
  • BioProject: PRJNA311523
  • Publication: PMID 27646534
  • Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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GeneRIFs: Gene References Into Functions

General gene information

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Homology

General protein information

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Preferred Names
collagen alpha-1(IX) chain

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Sscrofa11.1 Primary Assembly

Genomic

  1. NC_010443.5 Reference Sscrofa11.1 Primary Assembly

    Range
    50403355..50498356 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_003121273.4 → XP_003121321.2  collagen alpha-1(IX) chain isoform X1

    UniProtKB/TrEMBL
    A0A5G2QD63, A0A8D0XSJ2
    Related
    ENSSSCP00000062071.1, ENSSSCT00000073708.2
    Conserved Domains (2) summary
    pfam01391
    Location:454 → 512
    Collagen; Collagen triple helix repeat (20 copies)
    smart00210
    Location:50 → 244
    TSPN; Thrombospondin N-terminal -like domains

  2. XM_021089350.1 → XP_020945009.1  collagen alpha-1(IX) chain isoform X2

    UniProtKB/TrEMBL
    A0A481AEJ4, A0A8D2C3A3, F1RTT3
    Related
    ENSSSCP00000004615.5, ENSSSCT00000004723.5
    Conserved Domains (1) summary
    pfam01391
    Location:213 → 271
    Collagen; Collagen triple helix repeat (20 copies)
Nucleotide Protein
Heading Accession and Version

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