Human Gene COLEC10 (ENST00000332843.3_4) from GENCODE V47lift37

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Description: collectin subfamily member 10, transcript variant 1 (from RefSeq NM_006438.5)
Gencode Transcript: ENST00000332843.3_4
Gencode Gene: ENSG00000184374.3_7
Transcript (Including UTRs)
Position: hg19 chr8:120,079,486-120,120,694 Size: 41,209 Total Exon Count: 6 Strand: +
Coding Region
Position: hg19 chr8:120,079,521-120,118,430 Size: 38,910 Coding Exon Count: 6

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr8:120,079,486-120,120,694)			mRNA (may differ from genome)		Protein (277 aa)
Gene Sorter	Genome Browser	Other Species FASTA	Gene interactions	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	HGNC
Malacards	MGI	OMIM	PubMed	Reactome	UniProtKB
BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: COL10_HUMAN DESCRIPTION: RecName: Full=Collectin-10; AltName: Full=Collectin liver protein 1; Short=CL-L1; AltName: Full=Collectin-34; Short=CL-34; Flags: Precursor; FUNCTION: Lectin that binds to various sugars: galactose > mannose = fucose > N-acetylglucosamine > N-acetylgalactosamine. SUBCELLULAR LOCATION: Secreted. Note=According to PubMed:10224141, cytoplasmic. TISSUE SPECIFICITY: Highly expressed in liver, placenta and adrenal gland. Moderately expressed in small intestine, lung, stomach and prostate. Weakly expressed in trachea and spleen. SIMILARITY: Belongs to the COLEC10/COLEC11 family. SIMILARITY: Contains 1 C-type lectin domain. SIMILARITY: Contains 1 collagen-like domain. WEB RESOURCE: Name=Functional Glycomics Gateway - Glycan Binding; Note=Collectin L1; URL="http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Ctlect_226";

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

MalaCards Disease Associations


	MalaCards Gene Search: COLEC10 Diseases sorted by gene-association score: 3mc syndrome 3* (1329), 3mc syndrome* (247) * = Manually curated disease association

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D000082 Acetaminophen D001564 Benzo(a)pyrene D010634 Phenobarbital C006632 arsenic trioxide C006253 pirinixic acid C017947 sodium arsenite

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 9.36 RPKM in Liver Total median expression: 11.80 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-7.60	35	-0.217	Picture	PostScript	Text
3' UTR	-594.20	2264	-0.262	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR018378 - C-type_lectin_CS
IPR016187 - C-type_lectin_fold
IPR008160 - Collagen

Pfam Domains:
PF00059 - Lectin C-type domain
PF01391 - Collagen triple helix repeat (20 copies)

SCOP Domains:
56436 - C-type lectin-like

ModBase Predicted Comparative 3D Structure on Q9Y6Z7


Front	Top	Side

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Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0004252 serine-type endopeptidase activity GO:0005537 mannose binding GO:0030246 carbohydrate binding GO:0042056 chemoattractant activity Biological Process: GO:0001867 complement activation, lectin pathway GO:0006508 proteolysis GO:0006956 complement activation GO:0050918 positive chemotaxis GO:1904888 cranial skeletal system development Cellular Component: GO:0005576 extracellular region GO:0005581 collagen trimer GO:0005615 extracellular space GO:0005737 cytoplasm GO:0005794 Golgi apparatus

Descriptions from all associated GenBank mRNAs


	AK291791 - Homo sapiens cDNA FLJ75733 complete cds, highly similar to Homo sapiens collectin sub-family member 10 (C-type lectin) (COLEC10), mRNA. BC103815 - Homo sapiens collectin sub-family member 10 (C-type lectin), mRNA (cDNA clone MGC:118794 IMAGE:40000432), complete cds. BC103816 - Homo sapiens collectin sub-family member 10 (C-type lectin), mRNA (cDNA clone MGC:118795 IMAGE:40000433), complete cds. AY359038 - Homo sapiens clone DNA50980 COLEC10 (UNQ366) mRNA, complete cds. JD300329 - Sequence 281353 from Patent EP1572962. AB002631 - Homo sapiens mRNA for collectin 34, complete cds. KJ893083 - Synthetic construct Homo sapiens clone ccsbBroadEn_02477 COLEC10 gene, encodes complete protein. JD260451 - Sequence 241475 from Patent EP1572962. JD410246 - Sequence 391270 from Patent EP1572962. JD059420 - Sequence 40444 from Patent EP1572962. JD446282 - Sequence 427306 from Patent EP1572962. JD226306 - Sequence 207330 from Patent EP1572962. JD511256 - Sequence 492280 from Patent EP1572962. JD268627 - Sequence 249651 from Patent EP1572962. JD491469 - Sequence 472493 from Patent EP1572962. JD325984 - Sequence 307008 from Patent EP1572962. JD157575 - Sequence 138599 from Patent EP1572962. JD243878 - Sequence 224902 from Patent EP1572962. JD313530 - Sequence 294554 from Patent EP1572962. JD527474 - Sequence 508498 from Patent EP1572962. JD280735 - Sequence 261759 from Patent EP1572962. JD212469 - Sequence 193493 from Patent EP1572962. JD284533 - Sequence 265557 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q9Y6Z7 (Reactome details) participates in the following event(s): R-HSA-8852509 CL-LK binds carbohydrates on target cell surface R-HSA-166753 Conversion of C4 into C4a and C4b R-HSA-166792 Conversion of C2 into C2a and C2b R-HSA-166662 Lectin pathway of complement activation R-HSA-166786 Creation of C4 and C2 activators R-HSA-166663 Initial triggering of complement R-HSA-166658 Complement cascade R-HSA-168249 Innate Immune System R-HSA-168256 Immune System

Other Names for This Gene


	Alternate Gene Symbols: CLL1, COL10_HUMAN, ENST00000332843.1, ENST00000332843.2, NM_006438, Q3SYH6, Q6UW19, Q9Y6Z7, uc317tno.1, uc317tno.2, UNQ366/PRO702 UCSC ID: ENST00000332843.3_4 RefSeq Accession: NM_006438.5 Protein: Q9Y6Z7 (aka COL10_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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