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COLEC11 collectin subfamily member 11 [ Homo sapiens (human) ]

Gene ID: 78989, updated on 25-Nov-2021

Summary

Official Symbol
COLEC11provided by HGNC
Official Full Name
collectin subfamily member 11provided by HGNC
Primary source
HGNC:HGNC:17213
See related
Ensembl:ENSG00000118004 MIM:612502
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
3MC2; CLK1; CL-11; CL-K1-I; CL-K1-II; CL-K1-IIa; CL-K1-IIb
Summary
This gene encodes a member of the collectin family of C-type lectins that possess collagen-like sequences and carbohydrate recognition domains. Collectins are secreted proteins that play important roles in the innate immune system by binding to carbohydrate antigens on microorganisms, facilitating their recognition and removal. The encoded protein binds to multiple sugars with a preference for fucose and mannose. Mutations in this gene are a cause of 3MC syndrome-2. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Dec 2011]
Expression
Biased expression in gall bladder (RPKM 20.2), liver (RPKM 13.5) and 9 other tissues See more
Orthologs
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Genomic context

See COLEC11 in Genome Data Viewer
Location:
2p25.3
Exon count:
12
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (3595112..3644644)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (3642702..3692234)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene RNASEH1 divergent transcript Neighboring gene ribosomal protein S7 Neighboring gene TMSB4X pseudogene 2 Neighboring gene allantoicase Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 48 Neighboring gene uncharacterized LOC105373393

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC3279, DKFZp686N1868

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables calcium-dependent carbohydrate binding IDA
Inferred from Direct Assay
more info
PubMed 
enables fucose binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mannose binding IDA
Inferred from Direct Assay
more info
PubMed 
enables oligosaccharide binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
collectin-11
Names
Collectin K1
collectin kidney protein 1
collectin sub-family member 11

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.

Genomic

  1. NG_031954.1 RefSeqGene

    Range
    5001..54813
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_350

mRNA and Protein(s)

  1. NM_001255982.2NP_001242911.1  collectin-11 isoform c precursor

    See identical proteins and their annotated locations for NP_001242911.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AB119650, BE259985, BF740034
    UniProtKB/Swiss-Prot
    Q9BWP8
    Conserved Domains (1) summary
    cd03591
    Location:127242
    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)
  2. NM_001255983.2NP_001242912.1  collectin-11 isoform d precursor

    See identical proteins and their annotated locations for NP_001242912.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (d) is shorter than isoform a.
    Source sequence(s)
    AB119651, BE259985, BF740034
    Consensus CDS
    CCDS58690.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000371494.2, ENST00000382062.6
    Conserved Domains (2) summary
    cd03591
    Location:127242
    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:2176
    Collagen; Collagen triple helix repeat (20 copies)
  3. NM_001255984.2NP_001242913.1  collectin-11 isoform e precursor

    See identical proteins and their annotated locations for NP_001242913.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (e) is shorter than isoform a.
    Source sequence(s)
    AB119652, BE259985, BF740034
    UniProtKB/Swiss-Prot
    Q9BWP8
    Conserved Domains (1) summary
    cd03591
    Location:103218
    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)
  4. NM_001255985.1NP_001242914.1  collectin-11 isoform f precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (f) is longer and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AK303824, BC000078, BF740034
    Consensus CDS
    CCDS58689.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000411770.2, ENST00000418971.6
    Conserved Domains (2) summary
    cd03591
    Location:165280
    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:58111
    Collagen; Collagen triple helix repeat (20 copies)
  5. NM_001255986.1NP_001242915.1  collectin-11 isoform g

    See identical proteins and their annotated locations for NP_001242915.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (g) is shorter and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AB119684, BF740034
    Consensus CDS
    CCDS58691.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000385130.3, ENST00000403096.7
    Conserved Domains (2) summary
    cd03591
    Location:125240
    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:1871
    Collagen; Collagen triple helix repeat (20 copies)
  6. NM_001255987.1NP_001242916.1  collectin-11 isoform h

    See identical proteins and their annotated locations for NP_001242916.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, initiates translation at an alternate start codon, and lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (h) is shorter and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AB119685, BF740034
    Consensus CDS
    CCDS58693.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000384882.1, ENST00000402794.4
    Conserved Domains (1) summary
    cd03591
    Location:101216
    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)
  7. NM_001255988.1NP_001242917.1  collectin-11 isoform i

    See identical proteins and their annotated locations for NP_001242917.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) differs in the 5' UTR, initiates translation at an alternate start codon, and lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (i) is shorter and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AB119686, BF740034
    Consensus CDS
    CCDS58692.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000385653.1, ENST00000402922.2
    Conserved Domains (2) summary
    cd03591
    Location:101216
    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:1750
    Collagen; Collagen triple helix repeat (20 copies)
  8. NM_001255989.1NP_001242918.1  collectin-11 isoform j

    See identical proteins and their annotated locations for NP_001242918.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) differs in the 5' UTR, initiates translation at an alternate start codon, and lacks two consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (j) is shorter and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AB119687, BF740034
    Consensus CDS
    CCDS58694.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000385827.1, ENST00000404205.5
    Conserved Domains (1) summary
    cd03591
    Location:77192
    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)
  9. NM_024027.5NP_076932.1  collectin-11 isoform a precursor

    See identical proteins and their annotated locations for NP_076932.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform a.
    Source sequence(s)
    AB119525, BE259985, BF740034
    Consensus CDS
    CCDS1649.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000339168.4, ENST00000349077.9
    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:4497
    Collagen; Collagen triple helix repeat (20 copies)
  10. NM_199235.3NP_954705.1  collectin-11 isoform b

    See identical proteins and their annotated locations for NP_954705.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) includes an alternate exon in the 3' coding region and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (b) is shorter and has a distinct N-terminus, compared to isoform a.
    Source sequence(s)
    BC009951, BF740034
    Consensus CDS
    CCDS1650.1
    UniProtKB/Swiss-Prot
    Q9BWP8
    Related
    ENSP00000236693.7, ENST00000236693.11
    Conserved Domains (1) summary
    cd03591
    Location:148263
    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)

RNA

  1. NR_045659.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) contains an alternate internal exon in the 3' region, compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC000078, BE259985, BF740034, BM547424
    Related
    ENST00000416132.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    3595112..3644644
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006711897.3XP_006711960.1  collectin-11 isoform X2

    Conserved Domains (2) summary
    cd03591
    Location:141256
    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:3590
    Collagen; Collagen triple helix repeat (20 copies)
  2. XM_005263853.4XP_005263910.1  collectin-11 isoform X1

    Conserved Domains (1) summary
    cd03591
    Location:141256
    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)
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