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colec12 collectin sub-family member 12 [ Danio rerio (zebrafish) ]

Gene ID: 558942, updated on 2-Nov-2024

Summary

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Official Symbol
colec12provided by ZNC
Official Full Name
collectin sub-family member 12provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-9807
See related
Ensembl:ENSDARG00000061140 AllianceGenome:ZFIN:ZDB-GENE-030131-9807
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
cb377; zeh0853; sb:cb377; hm:zeh0853; id:ibd2826; si:ch211-212m21.5
Summary
Predicted to enable low-density lipoprotein particle binding activity and pattern recognition receptor activity. Acts upstream of or within vasculogenesis. Predicted to be located in membrane. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including cardiovascular system; epidermis; mesoderm; musculature system; and periderm. Orthologous to human COLEC12 (collectin subfamily member 12). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See colec12 in Genome Data Viewer
Location:
chromosome: 2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (31382590..31435158)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (31399338..31451940)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene adenylate cyclase activating polypeptide 1b Neighboring gene YES proto-oncogene 1, Src family tyrosine kinase Neighboring gene clusterin-like 1 (retinal) Neighboring gene signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 Neighboring gene transmembrane protein 236 Neighboring gene calcium channel, voltage-dependent, beta 2b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Molecular cloning and functional analysis of scavenger receptor zebrafish CL-P1. Fukuda M, et al. Biochim Biophys Acta, 2011 Dec. PMID 22001438
  2. Identification, characterization, and mapping of expressed sequence tags from an embryonic zebrafish heart cDNA library. Ton C, et al. Genome Res, 2000 Dec. PMID 11116087, Free PMC Article
  3. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
  4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
enables low-density lipoprotein particle binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables pattern recognition receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in phagocytosis, recognition IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within vasculogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
  
is_active_in collagen-containing extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
collectin-12
Names
zCL-P1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001122840.1 → NP_001116312.1  collectin-12

    See identical proteins and their annotated locations for NP_001116312.1

    Status: PROVISIONAL

    Source sequence(s)
    BX927088
    UniProtKB/Swiss-Prot
    A5PMY6, Q08CB7
    Related
    ENSDARP00000081297.5, ENSDART00000086863.7
    Conserved Domains (3) summary
    pfam01391
    Location:468 → 551
    Collagen; Collagen triple helix repeat (20 copies)
    cl02432
    Location:608 → 711
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    cl23720
    Location:145 → 267
    RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007113.7 Reference GRCz11 Primary Assembly

    Range
    31382590..31435158
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A5PMY6.1 GenPept UniProtKB/Swiss-Prot:A5PMY6

Gene LinkOut

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