Clec14a (C-type lectin domain family 14, member a) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Clec14a (C-type lectin domain family 14, member a) Mus musculus
Analyze
Symbol: Clec14a
Name: C-type lectin domain family 14, member a
RGD ID: 1552656
MGI Page MGI
Description: Predicted to enable extracellular matrix binding activity and extracellular matrix protein binding activity. Involved in cell migration involved in sprouting angiogenesis. Acts upstream of or within with a positive effect on vascular endothelial growth factor receptor-3 signaling pathway. Acts upstream of or within with a negative effect on vascular endothelial growth factor receptor-2 signaling pathway. Acts upstream of or within lymphangiogenesis and sprouting angiogenesis. Located in collagen-containing extracellular matrix. Is expressed in bladder; central nervous system; and embryo mesenchyme. Orthologous to human CLEC14A (C-type lectin domain containing 14A).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1200003C23Rik; AI642649; C-type lectin domain family 14 member A
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391258,311,506 - 58,316,044 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1258,311,506 - 58,316,076 (-)EnsemblGRCm39 Ensembl
GRCm381258,264,720 - 58,269,258 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1258,264,720 - 58,269,290 (-)EnsemblGRCm38mm10GRCm38
MGSCv371259,365,707 - 59,370,245 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361259,182,732 - 59,186,900 (-)NCBIMGSCv36mm8
Celera1259,419,185 - 59,423,723 (-)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1225.65NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12466305   PMID:12477932   PMID:15489334   PMID:16141072   PMID:16141073   PMID:20562862   PMID:21095181   PMID:21267068   PMID:21873635  
PMID:22159717   PMID:23644659   PMID:24003143   PMID:25745997   PMID:27991863   PMID:31351040   PMID:31964714   PMID:32019570   PMID:34107098   PMID:34321999  


Genomics

Comparative Map Data
Clec14a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391258,311,506 - 58,316,044 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1258,311,506 - 58,316,076 (-)EnsemblGRCm39 Ensembl
GRCm381258,264,720 - 58,269,258 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1258,264,720 - 58,269,290 (-)EnsemblGRCm38mm10GRCm38
MGSCv371259,365,707 - 59,370,245 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361259,182,732 - 59,186,900 (-)NCBIMGSCv36mm8
Celera1259,419,185 - 59,423,723 (-)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1225.65NCBI
CLEC14A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381438,254,000 - 38,256,093 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1438,254,000 - 38,256,093 (-)EnsemblGRCh38hg38GRCh38
GRCh371438,723,205 - 38,725,298 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361437,793,070 - 37,795,325 (-)NCBINCBI36Build 36hg18NCBI36
Celera1418,587,840 - 18,590,095 (-)NCBICelera
Cytogenetic Map14q21.1NCBI
HuRef1418,838,180 - 18,840,550 (-)NCBIHuRef
CHM1_11438,720,965 - 38,723,335 (-)NCBICHM1_1
T2T-CHM13v2.01432,442,690 - 32,444,783 (-)NCBIT2T-CHM13v2.0
Clec14a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8681,616,414 - 81,619,556 (-)NCBIGRCr8
mRatBN7.2675,881,470 - 75,884,612 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl675,881,473 - 75,884,612 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx676,290,931 - 76,294,072 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0676,590,282 - 76,593,423 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0676,017,735 - 76,020,876 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0679,303,301 - 79,306,443 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl679,303,304 - 79,306,443 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0688,832,646 - 88,835,788 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4678,851,636 - 78,854,778 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1678,854,764 - 78,857,904 (-)NCBI
Celera674,652,586 - 74,655,728 (-)NCBICelera
Cytogenetic Map6q23NCBI
Clec14a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540922,819,530 - 22,823,306 (+)NCBIChiLan1.0ChiLan1.0
CLEC14A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21539,577,819 - 39,581,718 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11438,794,323 - 38,798,228 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01419,014,672 - 19,018,551 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11437,374,049 - 37,376,621 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1437,374,493 - 37,375,965 (-)Ensemblpanpan1.1panPan2
CLEC14A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1816,609,425 - 16,612,772 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl816,611,240 - 16,612,709 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha816,414,773 - 16,418,124 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0816,725,500 - 16,728,851 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1816,419,013 - 16,422,364 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0816,477,258 - 16,480,609 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0816,777,896 - 16,781,247 (-)NCBIUU_Cfam_GSD_1.0
Clec14a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864048,606,360 - 48,609,975 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649412,114,371 - 12,115,787 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649412,112,163 - 12,115,836 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC14A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl761,826,015 - 61,832,808 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1761,825,688 - 61,827,960 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2766,528,722 - 66,531,458 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLEC14A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12415,047,320 - 15,051,145 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2415,048,214 - 15,049,689 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660534,078,490 - 4,081,871 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clec14a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248137,635,808 - 7,637,169 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248137,635,356 - 7,637,300 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Clec14a
125 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1078
Count of miRNA genes:531
Interacting mature miRNAs:673
Transcripts:ENSMUST00000062254
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
1301989Hdlq18_mHDL QTL 18 (mouse)Not determined122916068563160884Mouse
1300636Gct2_mgranulosa cell tumorigenesis 2 (mouse)Not determined122916068563160884Mouse
4141843Moen3_mmodifier of engrailed QTL 3 (mouse)Not determined122980158463801733Mouse
14747008Mancz10_mmandible centroid size 10 (mouse)122986352263863522Mouse
10402492Dipa8_mdrug induced psychomotor activation 8 (mouse)Not determined123493387268934019Mouse
1300818Bbaa10_mB.burgdorferi-associated arthritis 10 (mouse)Not determined123509100465511019Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235285496109936243Mouse
1357479Splwt1_mspleen weight 1 (mouse)Not determined124169317590887526Mouse
1357757Lnopy2_mlens opacity 2 (mouse)Not determined125284662686846796Mouse
1357749Vtbt13_mvertebral trabecular bone trait 13 (mouse)Not determined125313200287132145Mouse
12832727Ahrq1_mairway hyperresponsiveness QTL 1 (mouse)125469591082665939Mouse
13504832Bacszq2_mbaculum size QTL 2 (mouse)125694579875345787Mouse

Markers in Region
AI642649  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381258,267,212 - 58,267,355UniSTSGRCm38
MGSCv371259,368,199 - 59,368,342UniSTSGRCm37
Celera1259,421,677 - 59,421,820UniSTS
Cytogenetic Map12C1UniSTS
Whitehead/MRC_RH12585.78UniSTS
UniSTS:236854  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381258,268,612 - 58,268,847UniSTSGRCm38
MGSCv371259,369,599 - 59,369,834UniSTSGRCm37
Celera1259,423,077 - 59,423,312UniSTS
Cytogenetic Map12C1UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000062254   ⟹   ENSMUSP00000054451
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1258,311,506 - 58,316,076 (-)Ensembl
GRCm38.p6 Ensembl1258,264,720 - 58,269,290 (-)Ensembl
RefSeq Acc Id: NM_025809   ⟹   NP_080085
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391258,311,506 - 58,316,044 (-)NCBI
GRCm381258,264,720 - 58,269,258 (-)ENTREZGENE
MGSCv371259,365,707 - 59,370,245 (-)RGD
Celera1259,419,185 - 59,423,723 (-)RGD
cM Map12 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_080085   ⟸   NM_025809
- Peptide Label: precursor
- UniProtKB: Q9D624 (UniProtKB/Swiss-Prot),   Q9CXA8 (UniProtKB/Swiss-Prot),   Q3TP72 (UniProtKB/Swiss-Prot),   Q9DC55 (UniProtKB/Swiss-Prot),   Q8VCP9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000054451   ⟸   ENSMUST00000062254
Protein Domains
C-type lectin   EGF-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VCP9-F1-model_v2 AlphaFold Q8VCP9 1-459 view protein structure

Promoters
RGD ID:8678334
Promoter ID:EPDNEW_M17198
Type:initiation region
Name:Clec14a_1
Description:Mus musculus C-type lectin domain family 14, member a , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M17199  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381258,268,900 - 58,268,960EPDNEW
RGD ID:8678336
Promoter ID:EPDNEW_M17199
Type:initiation region
Name:Clec14a_2
Description:Mus musculus C-type lectin domain family 14, member a , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M17198  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381258,269,169 - 58,269,229EPDNEW
RGD ID:6822805
Promoter ID:MM_KWN:11731
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver,   Lung
Transcripts:NM_025809
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361259,369,276 - 59,370,032 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914114 AgrOrtholog
Ensembl Genes ENSMUSG00000045930 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000062254 ENTREZGENE
  ENSMUST00000062254.4 UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.100.10 UniProtKB/Swiss-Prot
  Laminin UniProtKB/Swiss-Prot
InterPro C-type_lectin-like UniProtKB/Swiss-Prot
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot
  CTDL_fold UniProtKB/Swiss-Prot
KEGG Report mmu:66864 UniProtKB/Swiss-Prot
MGD MGI:1914114 ENTREZGENE
NCBI Gene 66864 ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 14 MEMBER A UniProtKB/Swiss-Prot
  CHONDROLECTIN VARIANT CHODLFDELTAE UniProtKB/Swiss-Prot
PhenoGen Clec14a PhenoGen
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot
  C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot
  EGF_2 UniProtKB/Swiss-Prot
SMART CLECT UniProtKB/Swiss-Prot
Superfamily-SCOP EGF/Laminin UniProtKB/Swiss-Prot
  SSF56436 UniProtKB/Swiss-Prot
UniProt CLC14_MOUSE UniProtKB/Swiss-Prot
  Q3TP72 ENTREZGENE
  Q8VCP9 ENTREZGENE
  Q9CXA8 ENTREZGENE
  Q9D624 ENTREZGENE
  Q9DC55 ENTREZGENE
UniProt Secondary Q3TP72 UniProtKB/Swiss-Prot
  Q9CXA8 UniProtKB/Swiss-Prot
  Q9D624 UniProtKB/Swiss-Prot
  Q9DC55 UniProtKB/Swiss-Prot