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COLEC12 collectin subfamily member 12 [ Sus scrofa (pig) ]

Gene ID: 102166764, updated on 17-Aug-2024

Summary

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Official Symbol
COLEC12provided by VGNC
Official Full Name
collectin subfamily member 12provided by VGNC
Primary source
VGNC:VGNC:96956
See related
Ensembl:ENSSSCG00000040397
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
Ubiquitous expression in lung (RPKM 21.6), subcutaneous adipose (RPKM 15.6) and 7 other tissues See more
Orthologs
human mouse all
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Genomic context

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See COLEC12 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
11
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 6 NC_010448.4 (105808157..106000197)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) Unplaced Scaffold NW_003539842.1 (45769..46546, complement)

Chromosome 6 - NC_010448.4Genomic Context describing neighboring genes Neighboring gene clusterin like 1 Neighboring gene centrin 1 Neighboring gene uncharacterized LOC110261178 Neighboring gene THO complex subunit 1 Neighboring gene ubiquitin specific peptidase 14 Neighboring gene Rho associated coiled-coil containing protein kinase 1

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 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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Related articles in PubMed

  1. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
  2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in collagen-containing extracellular matrix IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
collectin-12
Names
collectin sub-family member 12

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_010448.4 Reference Sscrofa11.1 Primary Assembly

    Range
    105808157..106000197
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021096155.1 → XP_020951814.1  collectin-12 isoform X1

    UniProtKB/TrEMBL
    A0A4X1VPB6, A0A8D0Q540
    Conserved Domains (3) summary
    cd03590
    Location:607 → 732
    CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)
    pfam01391
    Location:454 → 563
    Collagen; Collagen triple helix repeat (20 copies)
    cl25732
    Location:77 → 350
    SMC_N; RecF/RecN/SMC N terminal domain

  2. XM_021096156.1 → XP_020951815.1  collectin-12 isoform X2

    UniProtKB/TrEMBL
    A0A4X1VQ51, A0A8D0IW93, A0A8D0Q540, K9J4M9
    Related
    ENSSSCP00000036797.1, ENSSSCT00000047237.2
    Conserved Domains (3) summary
    cd03590
    Location:607 → 732
    CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)
    pfam01391
    Location:454 → 563
    Collagen; Collagen triple helix repeat (20 copies)
    cl25732
    Location:77 → 350
    SMC_N; RecF/RecN/SMC N terminal domain
Nucleotide Protein Strain
Heading Accession and Version

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