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colec11 collectin sub-family member 11 [ Danio rerio (zebrafish) ]

Gene ID: 492459, updated on 5-Oct-2024

Summary

Official Symbol
colec11provided by ZNC
Official Full Name
collectin sub-family member 11provided by ZNC
Primary source
ZFIN:ZDB-GENE-041114-11
See related
Ensembl:ENSDARG00000013266 AllianceGenome:ZFIN:ZDB-GENE-041114-11
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
wu:fb82e09; zgc:103572
Summary
Predicted to enable several functions, including calcium ion binding activity; calcium-dependent carbohydrate binding activity; and monosaccharide binding activity. Involved in developmental process. Acts upstream of or within neural crest cell migration. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular space. Is expressed in head; hindbrain; liver; pronephric duct; and pronephric glomerulus. Human ortholog(s) of this gene implicated in 3MC syndrome 2. Orthologous to human COLEC11 (collectin subfamily member 11). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

See colec11 in Genome Data Viewer
Location:
chromosome: 17
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (36516697..36675721, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (36569118..36599716, complement)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103909056 Neighboring gene uncharacterized LOC137488128 Neighboring gene doublecortin domain containing 2C Neighboring gene 5-hydroxytryptamine (serotonin) receptor 1B Neighboring gene interphotoreceptor matrix proteoglycan 1b Neighboring gene myosin VIb Neighboring gene SUMO specific peptidase 6b

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from PubChem

General gene information

Markers

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables D-mannose binding IEA
Inferred from Electronic Annotation
more info
 
enables D-mannose binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables calcium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables calcium-dependent carbohydrate binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables fucose binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables oligosaccharide binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
involved_in antimicrobial humoral response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in complement activation, lectin pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in developmental process IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within neural crest cell migration IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within neural crest cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in extracellular space ISS
Inferred from Sequence or Structural Similarity
more info
 

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_001007331.1NP_001007332.1  collectin-11 precursor

    See identical proteins and their annotated locations for NP_001007332.1

    Status: PROVISIONAL

    Source sequence(s)
    BC085557
    UniProtKB/Swiss-Prot
    Q5U3G1
    Related
    ENSDARP00000016314.6, ENSDART00000025019.7
    Conserved Domains (2) summary
    cd03591
    Location:151266
    CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
    pfam01391
    Location:44102
    Collagen; Collagen triple helix repeat (20 copies)

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_007128.7 Reference GRCz11 Primary Assembly

    Range
    36516697..36675721 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068214397.1XP_068070498.1  collectin-11 isoform X2

  2. XM_068214396.1XP_068070497.1  collectin-11 isoform X1

  3. XM_009293192.4XP_009291467.1  collectin-11 isoform X4

    See identical proteins and their annotated locations for XP_009291467.1

    UniProtKB/TrEMBL
    A0A8M3AK08
    Conserved Domains (2) summary
    cd03591
    Location:157272
    CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
    pfam01391
    Location:44102
    Collagen; Collagen triple helix repeat (20 copies)
  4. XM_068214398.1XP_068070499.1  collectin-11 isoform X3

  5. XM_009293191.4XP_009291466.1  collectin-11 isoform X4

    See identical proteins and their annotated locations for XP_009291466.1

    UniProtKB/TrEMBL
    A0A8M3AK08
    Conserved Domains (2) summary
    cd03591
    Location:157272
    CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
    pfam01391
    Location:44102
    Collagen; Collagen triple helix repeat (20 copies)