Clec14a (C-type lectin domain containing 14A) - Rat Genome Database

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Gene: Clec14a (C-type lectin domain containing 14A) Rattus norvegicus
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Symbol: Clec14a
Name: C-type lectin domain containing 14A
RGD ID: 1306232
Description: Predicted to enable extracellular matrix binding activity and extracellular matrix protein binding activity. Predicted to be involved in cell migration involved in sprouting angiogenesis. Predicted to act upstream of or within with a positive effect on vascular endothelial growth factor receptor-3 signaling pathway. Predicted to act upstream of or within with a negative effect on vascular endothelial growth factor receptor-2 signaling pathway. Predicted to act upstream of or within lymphangiogenesis and sprouting angiogenesis. Predicted to be located in membrane. Predicted to be active in external side of plasma membrane. Orthologous to human CLEC14A (C-type lectin domain containing 14A); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-type lectin domain family 14 member A; C-type lectin domain family 14, member A; LOC314148; RGD1306232; similar to RIKEN cDNA 1200003C23
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8681,616,414 - 81,619,556 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl681,612,953 - 81,619,614 (-)EnsemblGRCr8
mRatBN7.2675,881,470 - 75,884,612 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl675,881,473 - 75,884,612 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx676,290,931 - 76,294,072 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0676,590,282 - 76,593,423 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0676,017,735 - 76,020,876 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0679,303,301 - 79,306,443 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl679,303,304 - 79,306,443 (-)Ensemblrn6Rnor6.0
Rnor_5.0688,832,646 - 88,835,788 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4678,851,636 - 78,854,778 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera674,652,586 - 74,655,728 (-)NCBICelera
RGSC_v3.1678,854,764 - 78,857,904 (-)NCBI
Cytogenetic Map6q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:23376485   PMID:23979707   PMID:25745997   PMID:27991863  


Genomics

Comparative Map Data
Clec14a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8681,616,414 - 81,619,556 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl681,612,953 - 81,619,614 (-)EnsemblGRCr8
mRatBN7.2675,881,470 - 75,884,612 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl675,881,473 - 75,884,612 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx676,290,931 - 76,294,072 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0676,590,282 - 76,593,423 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0676,017,735 - 76,020,876 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0679,303,301 - 79,306,443 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl679,303,304 - 79,306,443 (-)Ensemblrn6Rnor6.0
Rnor_5.0688,832,646 - 88,835,788 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4678,851,636 - 78,854,778 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera674,652,586 - 74,655,728 (-)NCBICelera
RGSC_v3.1678,854,764 - 78,857,904 (-)NCBI
Cytogenetic Map6q23NCBI
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 (-)Ensemblhg38GRCh38
GRCh371438,723,205 - 38,725,298 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361437,793,070 - 37,795,325 (-)NCBIBuild 36Build 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
(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 EnsemblGRCm39
GRCm381258,264,720 - 58,269,258 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1258,264,720 - 58,269,290 (-)Ensemblmm10GRCm38
MGSCv371259,365,707 - 59,370,245 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361259,182,732 - 59,186,900 (-)NCBIMGSCv36mm8
Celera1259,419,185 - 59,423,723 (-)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1225.65NCBI
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha816,414,773 - 16,418,124 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0816,725,500 - 16,728,851 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248137,635,356 - 7,637,300 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Clec14a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1771,604,916 - 71,608,136 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Clec14a
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:37
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000030706
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)64095756485957564Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)671278722116278722Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)664367996109367996Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)66345744194939581Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)66303731995934232Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63902865986867923Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)678204640123204640Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)676937178121937178Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)64016318385163183Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)66345744194939581Rat

Markers in Region
AI170389  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8681,616,710 - 81,616,954 (+)Marker Load Pipeline
mRatBN7.2675,881,766 - 75,882,010 (+)MAPPERmRatBN7.2
Rnor_6.0679,303,598 - 79,303,841NCBIRnor6.0
Rnor_5.0688,832,943 - 88,833,186UniSTSRnor5.0
RGSC_v3.4678,851,933 - 78,852,176UniSTSRGSC3.4
Celera674,652,883 - 74,653,126UniSTS
RH 3.4 Map6546.5UniSTS
Cytogenetic Map6q23UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 155 91 90 59 36 59 6 299 136 11 134 80 92 31 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000030706   ⟹   ENSRNOP00000038701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl681,612,953 - 81,619,614 (-)Ensembl
mRatBN7.2 Ensembl675,881,473 - 75,884,612 (-)Ensembl
Rnor_6.0 Ensembl679,303,304 - 79,306,443 (-)Ensembl
RefSeq Acc Id: NM_001014077   ⟹   NP_001014099
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8681,616,414 - 81,619,556 (-)NCBI
mRatBN7.2675,881,470 - 75,884,612 (-)NCBI
Rnor_6.0679,303,301 - 79,306,443 (-)NCBI
Rnor_5.0688,832,646 - 88,835,788 (-)NCBI
RGSC_v3.4678,851,636 - 78,854,778 (-)RGD
Celera674,652,586 - 74,655,728 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001014099 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH81897 (Get FASTA)   NCBI Sequence Viewer  
  EDM03460 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000038701
  ENSRNOP00000038701.4
RefSeq Acc Id: NP_001014099   ⟸   NM_001014077
- Peptide Label: precursor
- UniProtKB: Q642B4 (UniProtKB/TrEMBL),   F7FMP6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000038701   ⟸   ENSRNOT00000030706
Protein Domains
C-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q642B4-F1-model_v2 AlphaFold Q642B4 1-468 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694612
Promoter ID:EPDNEW_R5137
Type:initiation region
Name:Clec14a_1
Description:C-type lectin domain containing 14A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0679,306,462 - 79,306,522EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306232 AgrOrtholog
BioCyc Gene G2FUF-37400 BioCyc
Ensembl Genes ENSRNOG00000022697 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030706 ENTREZGENE
  ENSRNOT00000030706.7 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7110446 IMAGE-MGC_LOAD
InterPro C-type_lectin UniProtKB/TrEMBL
  C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin_domain UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
KEGG Report rno:314148 UniProtKB/TrEMBL
MGC_CLONE MGC:93813 IMAGE-MGC_LOAD
NCBI Gene 314148 ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 14 MEMBER A UniProtKB/TrEMBL
  CHONDROLECTIN VARIANT CHODLFDELTAE UniProtKB/TrEMBL
PhenoGen Clec14a PhenoGen
PROSITE C_TYPE_LECTIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022697 RatGTEx
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
  EGF/Laminin UniProtKB/TrEMBL
UniProt F7FMP6 ENTREZGENE, UniProtKB/TrEMBL
  Q642B4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-29 Clec14a  C-type lectin domain containing 14A  Clec14a  C-type lectin domain family 14, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-08 Clec14a  C-type lectin domain family 14, member A  Clec14a  C-type lectin domain family 14, member a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Clec14a  C-type lectin domain family 14, member a  RGD1306232  similar to RIKEN cDNA 1200003C23  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1306232  similar to RIKEN cDNA 1200003C23  RGD1306232_predicted  similar to RIKEN cDNA 1200003C23 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1306232_predicted  similar to RIKEN cDNA 1200003C23 (predicted)  LOC314148_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC314148_predicted  similar to RIKEN cDNA 1200003C23 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL