CLEC10A (C-type lectin domain containing 10A) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: CLEC10A (C-type lectin domain containing 10A) Chlorocebus sabaeus
Analyze
Symbol: CLEC10A
Name: C-type lectin domain containing 10A
RGD ID: 18376507
Description: ENCODES a protein that exhibits carbohydrate binding (inferred); signaling receptor activity (inferred); INVOLVED IN connective tissue replacement involved in inflammatory response wound healing (ortholog); ASSOCIATED WITH common variable immunodeficiency (ortholog); congenital myasthenic syndrome 2A (ortholog); developmental and epileptic encephalopathy 25 (ortholog); FOUND IN membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C-type lectin domain family 10 member A
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,433,755 - 6,439,808 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl166,433,573 - 6,437,509 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605914,976,544 - 14,982,952 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CLEC10A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,433,755 - 6,439,808 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl166,433,573 - 6,437,509 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605914,976,544 - 14,982,952 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CLEC10A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38177,074,537 - 7,080,251 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl177,074,537 - 7,080,307 (-)EnsemblGRCh38hg38GRCh38
GRCh37176,977,856 - 6,983,570 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36176,918,580 - 6,924,324 (-)NCBINCBI36Build 36hg18NCBI36
Celera177,003,370 - 7,009,114 (-)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef176,871,024 - 6,876,985 (-)NCBIHuRef
CHM1_1176,986,946 - 6,992,690 (-)NCBICHM1_1
T2T-CHM13v2.0176,975,209 - 6,980,923 (-)NCBIT2T-CHM13v2.0
Clec10a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391170,057,449 - 70,061,662 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1170,047,023 - 70,061,660 (+)EnsemblGRCm39 Ensembl
GRCm381170,166,623 - 70,170,836 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1170,156,197 - 70,170,834 (+)EnsemblGRCm38mm10GRCm38
MGSCv371169,980,276 - 69,984,336 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361169,982,969 - 69,987,029 (+)NCBIMGSCv36mm8
Celera1177,711,536 - 77,715,590 (+)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1142.99NCBI
Clec10a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81055,374,914 - 55,379,110 (+)NCBIGRCr8
mRatBN7.21054,876,244 - 54,880,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1054,876,260 - 54,880,435 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1059,554,904 - 59,559,087 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01059,043,494 - 59,047,677 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01054,542,607 - 54,546,808 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01056,764,927 - 56,769,447 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1056,764,927 - 56,769,457 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01056,506,746 - 56,511,267 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,998,778 - 57,002,953 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11057,012,400 - 57,016,577 (+)NCBI
Celera1054,027,765 - 54,031,940 (+)NCBICelera
Cytogenetic Map10q24NCBI
CLEC10A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21914,667,648 - 14,676,011 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11716,633,665 - 16,642,021 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0177,104,887 - 7,111,883 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1177,092,968 - 7,098,882 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl177,092,968 - 7,097,462 (-)Ensemblpanpan1.1panPan2
LOC607405
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1532,088,705 - 32,093,677 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl532,089,454 - 32,159,866 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha532,227,373 - 32,232,624 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0532,193,636 - 32,198,926 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl532,193,634 - 32,197,977 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1532,159,724 - 32,164,974 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0532,118,902 - 32,124,154 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0532,295,410 - 32,300,692 (-)NCBIUU_Cfam_GSD_1.0
CLEC10A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11252,461,750 - 52,464,632 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21254,751,860 - 54,755,849 (-)NCBISscrofa10.2Sscrofa10.2susScr3


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium
Low 14 20
Below cutoff 29 6 20

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000010195   ⟹   ENSCSAP00000008291
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl166,433,573 - 6,437,509 (-)Ensembl
RefSeq Acc Id: XM_037987915   ⟹   XP_037843843
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605914,976,544 - 14,982,952 (+)NCBI
Protein Sequences
Protein RefSeqs XP_037843843 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000008291.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000008291   ⟸   ENSCSAT00000010195
RefSeq Acc Id: XP_037843843   ⟸   XM_037987915
- UniProtKB: A0A0D9RI52 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012123 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000010195.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/TrEMBL
  CD209-like_CTLD UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
NCBI Gene CLEC10A ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN CONTAINING 10A UniProtKB/TrEMBL
  MANNOSE, PHOSPHOLIPASE, LECTIN RECEPTOR RELATED UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/TrEMBL
  Lectin_N UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/TrEMBL
UniProt A0A0D9RI52 ENTREZGENE, UniProtKB/TrEMBL