Clec4d (C-type lectin domain family 4 member D) - Rat Genome Database

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Gene: Clec4d (C-type lectin domain family 4 member D) Ictidomys tridecemlineatus
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Symbol: Clec4d
Name: C-type lectin domain family 4 member D
RGD ID: 12635707
Description: ENCODES a protein that exhibits immunoglobulin receptor binding (ortholog); mannose binding (ortholog); pattern recognition receptor activity (ortholog); INVOLVED IN adaptive immune response (ortholog); antifungal innate immune response (ortholog); defense response to bacterium (ortholog); ASSOCIATED WITH developmental and epileptic encephalopathy 21 (ortholog); Hyperphosphatemic Familial Tumoral Calcinosis 1 (ortholog); immunodeficiency with hyper-IgM type 2 (ortholog); FOUND IN plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: C-type lectin domain family 4 member D
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494599,887,289 - 99,896,017 (+)NCBI
SpeTri2.0NW_004936858303,639 - 312,092 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Comparative Map Data
Clec4d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494599,887,289 - 99,896,017 (+)NCBI
SpeTri2.0NW_004936858303,639 - 312,092 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC4D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl128,509,475 - 8,522,366 (+)EnsemblGRCh38hg38GRCh38
GRCh38128,513,492 - 8,522,366 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37128,666,099 - 8,674,962 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36128,557,403 - 8,566,229 (+)NCBINCBI36hg18NCBI36
Build 34128,557,402 - 8,566,225NCBI
Celera1210,202,132 - 10,210,958 (+)NCBI
Cytogenetic Map12p13.31NCBI
HuRef128,448,485 - 8,457,311 (+)NCBIHuRef
CHM1_1128,635,100 - 8,643,926 (+)NCBICHM1_1
Clec4d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396123,239,066 - 123,252,227 (+)NCBIGRCm39mm39
GRCm39 Ensembl6123,239,070 - 123,252,224 (+)Ensembl
GRCm386123,262,107 - 123,275,268 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6123,262,111 - 123,275,265 (+)EnsemblGRCm38mm10GRCm38
MGSCv376123,212,125 - 123,225,286 (+)NCBIGRCm37mm9NCBIm37
MGSCv366123,227,736 - 123,240,884 (+)NCBImm8
Celera6125,059,667 - 125,072,919 (+)NCBICelera
Cytogenetic Map6F2NCBI
cM Map658.33NCBI
Clec4d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24156,589,591 - 156,598,969 (+)NCBI
Rnor_6.0 Ensembl4156,253,079 - 156,264,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04156,253,084 - 156,264,766 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04223,269,999 - 223,281,665 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44159,883,556 - 159,892,609 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14160,128,491 - 160,137,545 (+)NCBI
Celera4145,381,212 - 145,388,954 (+)NCBICelera
Cytogenetic Map4q42NCBI
Clec4d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554135,267,161 - 5,277,090 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554135,267,548 - 5,276,969 (-)NCBIChiLan1.0ChiLan1.0
CLEC4D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1128,814,680 - 8,823,484 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl128,814,680 - 8,823,484 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0128,599,654 - 8,608,494 (+)NCBIMhudiblu_PPA_v0panPan3
LOC611536
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12737,520,289 - 37,559,920 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2737,551,064 - 37,558,847 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha279,056,404 - 9,095,670 (-)NCBI
ROS_Cfam_1.02737,874,289 - 37,913,533 (+)NCBI
UMICH_Zoey_3.12737,748,924 - 37,788,104 (+)NCBI
UNSW_CanFamBas_1.02737,790,476 - 37,829,811 (+)NCBI
UU_Cfam_GSD_1.0278,543,144 - 8,582,370 (-)NCBI
CLEC4D
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1118,294,999 - 8,303,866 (+)NCBI


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_013365662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_013365662   ⟹   XP_013221116
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494599,887,289 - 99,896,017 (+)NCBI
SpeTri2.0NW_004936858303,639 - 312,092 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013221116 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_013221116   ⟸   XM_013365662
- Sequence:
Protein Domains
C-type lectin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000012112 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000010863 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000012114 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
  CD209-like_CTLD UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
NCBI Gene Clec4d ENTREZGENE
Pfam Lectin_C UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/TrEMBL
UniProt I3MIK6_ICTTR UniProtKB/TrEMBL