CLEC5A (C-type lectin domain containing 5A) - Rat Genome Database

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Gene: CLEC5A (C-type lectin domain containing 5A) Sus scrofa
Analyze
Symbol: CLEC5A
Name: C-type lectin domain containing 5A
RGD ID: 14205334
Description: ENCODES a protein that exhibits carbohydrate binding (inferred); virus receptor activity (inferred); INVOLVED IN myeloid cell differentiation (ortholog); negative regulation of apoptotic process (ortholog); negative regulation of myeloid cell apoptotic process (ortholog); ASSOCIATED WITH dengue hemorrhagic fever (ortholog); Hereditary Pancreatitis (ortholog); Mycoplasma pneumoniae pneumonia (ortholog); FOUND IN cell surface (ortholog); cytosol (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C-type lectin domain family 5 member A; C-type lectin domain family 5, member A; C-type lectin superfamily member 5; CLECSF5; MDL-1; myeloid DAP12-associating lectin 1; myeloid DAP12-associating lectin long form
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl188,004,448 - 8,016,308 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1188,004,423 - 8,014,390 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2188,311,180 - 8,313,117 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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

References
Additional References at PubMed
PMID:11414735   PMID:30032202  


Genomics

Comparative Map Data
CLEC5A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl188,004,448 - 8,016,308 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1188,004,423 - 8,014,390 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2188,311,180 - 8,313,117 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLEC5A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387141,927,357 - 141,946,974 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7141,927,357 - 141,947,007 (-)EnsemblGRCh38hg38GRCh38
GRCh377141,627,157 - 141,646,774 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367141,273,626 - 141,293,252 (-)NCBINCBI36Build 36hg18NCBI36
Build 347141,080,340 - 141,099,967NCBI
Celera7136,348,653 - 136,368,271 (-)NCBICelera
Cytogenetic Map7q34NCBI
HuRef7135,923,563 - 135,943,134 (-)NCBIHuRef
CHM1_17141,561,389 - 141,581,014 (-)NCBICHM1_1
T2T-CHM13v2.07143,243,134 - 143,262,731 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27140,965,368 - 140,984,972 (-)NCBI
Clec5a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39640,551,832 - 40,562,739 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl640,551,828 - 40,562,755 (-)EnsemblGRCm39 Ensembl
GRCm38640,574,898 - 40,585,805 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl640,574,894 - 40,585,821 (-)EnsemblGRCm38mm10GRCm38
MGSCv37640,524,897 - 40,535,804 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36640,504,505 - 40,515,412 (-)NCBIMGSCv36mm8
Celera640,562,066 - 40,572,779 (-)NCBICelera
Cytogenetic Map6B1NCBI
cM Map618.82NCBI
Clec5a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8470,373,855 - 70,383,560 (-)NCBIGRCr8
mRatBN7.2469,407,125 - 69,416,872 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl469,407,835 - 69,416,859 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx474,336,083 - 74,345,068 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0470,257,238 - 70,266,223 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0468,664,795 - 68,673,790 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0468,810,330 - 68,819,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl468,808,359 - 68,819,928 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04133,597,708 - 133,607,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4468,174,953 - 68,183,934 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera464,398,299 - 64,407,282 (-)NCBICelera
Cytogenetic Map4q23NCBI
Clec5a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554941,683,956 - 1,693,348 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554941,683,926 - 1,694,914 (+)NCBIChiLan1.0ChiLan1.0
CLEC5A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26178,709,170 - 178,727,813 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1730,719,425 - 30,738,068 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07133,851,242 - 133,870,793 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17146,320,331 - 146,339,905 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7146,320,331 - 146,339,905 (-)Ensemblpanpan1.1panPan2
CLEC5A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1167,242,424 - 7,269,986 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl167,243,018 - 7,269,418 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha168,101,578 - 8,129,069 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0167,163,928 - 7,191,422 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl167,163,889 - 7,191,467 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1167,117,292 - 7,144,789 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0166,959,777 - 6,987,277 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0167,027,385 - 7,054,887 (+)NCBIUU_Cfam_GSD_1.0
Clec5a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511813,478,167 - 13,486,480 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365925,733,332 - 5,741,047 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365925,733,592 - 5,741,573 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC5A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121110,629,443 - 110,650,350 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl21110,632,181 - 110,649,204 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660727,313,588 - 7,335,832 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clec5a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476521,864,722 - 21,875,013 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476521,865,583 - 21,874,985 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CLEC5A
441 total Variants

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

alimentary part of gastrointestinal system nervous system renal system reproductive system respiratory system
High
Medium 2
Low 3 17 1
Below cutoff 1 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000027750   ⟹   ENSSSCP00000021190
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl188,004,448 - 8,016,318 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000031347   ⟹   ENSSSCP00000024397
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl188,004,448 - 8,016,308 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000083863   ⟹   ENSSSCP00000068297
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl188,004,448 - 8,012,644 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000100326   ⟹   ENSSSCP00000077179
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl188,005,127 - 8,014,391 (+)Ensembl
RefSeq Acc Id: NM_213990   ⟹   NP_999155
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1188,005,127 - 8,014,389 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005657731   ⟹   XP_005657788
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1188,004,423 - 8,014,390 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021078504   ⟹   XP_020934163
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1188,004,423 - 8,014,390 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005657788   ⟸   XM_005657731
- Peptide Label: isoform X1
- UniProtKB: Q9GLF3 (UniProtKB/Swiss-Prot),   Q9GLF4 (UniProtKB/Swiss-Prot),   A0A8D1UQK2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020934163   ⟸   XM_021078504
- Peptide Label: isoform X2
- UniProtKB: A0A8D1G065 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_999155   ⟸   NM_213990
- UniProtKB: Q9GLF4 (UniProtKB/Swiss-Prot),   Q9GLF3 (UniProtKB/Swiss-Prot),   A0A8D1UQK2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000068297   ⟸   ENSSSCT00000083863
RefSeq Acc Id: ENSSSCP00000024397   ⟸   ENSSSCT00000031347
RefSeq Acc Id: ENSSSCP00000021190   ⟸   ENSSSCT00000027750
RefSeq Acc Id: ENSSSCP00000077179   ⟸   ENSSSCT00000100326
Protein Domains
C-type lectin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000021933 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSSSCG00025031989 UniProtKB/TrEMBL
  ENSSSCG00035041588 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSSSCG00040073051 UniProtKB/TrEMBL
  ENSSSCG00045027811 UniProtKB/TrEMBL
  ENSSSCG00055022970 UniProtKB/TrEMBL
  ENSSSCG00060022027 UniProtKB/TrEMBL
  ENSSSCG00070021595 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000031347 ENTREZGENE
  ENSSSCT00000031347.4 UniProtKB/TrEMBL
  ENSSSCT00000083863.1 UniProtKB/TrEMBL
  ENSSSCT00000100326 ENTREZGENE
  ENSSSCT00000100326.1 UniProtKB/Swiss-Prot
  ENSSSCT00025043670.1 UniProtKB/TrEMBL
  ENSSSCT00035055245.1 UniProtKB/TrEMBL
  ENSSSCT00035055257.1 UniProtKB/Swiss-Prot
  ENSSSCT00035055263.1 UniProtKB/TrEMBL
  ENSSSCT00035055265.1 UniProtKB/TrEMBL
  ENSSSCT00040101178.1 UniProtKB/TrEMBL
  ENSSSCT00040101243.1 UniProtKB/TrEMBL
  ENSSSCT00045047352.1 UniProtKB/TrEMBL
  ENSSSCT00045047579.1 UniProtKB/TrEMBL
  ENSSSCT00055045180.1 UniProtKB/TrEMBL
  ENSSSCT00055045238.1 UniProtKB/TrEMBL
  ENSSSCT00055045300.1 UniProtKB/TrEMBL
  ENSSSCT00060029894.1 UniProtKB/TrEMBL
  ENSSSCT00060029897.1 UniProtKB/TrEMBL
  ENSSSCT00060029901.1 UniProtKB/TrEMBL
  ENSSSCT00070042925.1 UniProtKB/TrEMBL
  ENSSSCT00070042942.1 UniProtKB/Swiss-Prot
  ENSSSCT00070042955.1 UniProtKB/TrEMBL
  ENSSSCT00070042965.1 UniProtKB/TrEMBL
  ENSSSCT00070042970.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NKR-like_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:397050 UniProtKB/Swiss-Prot
NCBI Gene CLEC5A ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A UniProtKB/Swiss-Prot
  C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A UniProtKB/Swiss-Prot
  C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A UniProtKB/TrEMBL
  C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A4X1V0E2_PIG UniProtKB/TrEMBL
  A0A4X1V0H8_PIG UniProtKB/TrEMBL
  A0A4X1V3G8_PIG UniProtKB/TrEMBL
  A0A4X1V5S5_PIG UniProtKB/TrEMBL
  A0A5G2R273_PIG UniProtKB/TrEMBL
  A0A8D1G065 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1UQK2 ENTREZGENE, UniProtKB/TrEMBL
  A0A900PHW2_PIG UniProtKB/TrEMBL
  CLC5A_PIG UniProtKB/Swiss-Prot, ENTREZGENE
  Q9GLF4 ENTREZGENE
UniProt Secondary Q9GLF4 UniProtKB/Swiss-Prot
VGNC ID VGNC:86757 ENTREZGENE