Clec4g (C-type lectin domain family 4, member G) - Rat Genome Database

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Gene: Clec4g (C-type lectin domain family 4, member G) Rattus norvegicus
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Symbol: Clec4g
Name: C-type lectin domain family 4, member G
RGD ID: 1597482
Description: Predicted to enable several functions, including monosaccharide binding activity; virus coreceptor activity; and virus receptor activity. Predicted to be involved in positive regulation of viral life cycle and viral entry into host cell. Predicted to act upstream of or within negative regulation of T cell mediated immunity; negative regulation of alpha-beta T cell proliferation; and negative regulation of immature T cell proliferation in thymus. Predicted to be located in plasma membrane. Orthologous to human CLEC4G (C-type lectin domain family 4 member G); INTERACTS WITH indole-3-methanol; paraquat; 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C-type lectin domain family 4 member G; LOC689004; RGD1562320; similar to C-type lectin domain family 4, member g
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2121,780,370 - 1,785,027 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,780,371 - 1,784,985 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0122,273,649 - 2,278,594 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,273,941 - 2,277,169 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,434,464 - 4,439,027 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,412,875 - 2,416,940 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera123,635,478 - 3,641,645 (-)NCBICelera
Cytogenetic Map12p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18697825   PMID:19632227   PMID:23487419  


Genomics

Comparative Map Data
Clec4g
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2121,780,370 - 1,785,027 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,780,371 - 1,784,985 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0122,273,649 - 2,278,594 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,273,941 - 2,277,169 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,434,464 - 4,439,027 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,412,875 - 2,416,940 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera123,635,478 - 3,641,645 (-)NCBICelera
Cytogenetic Map12p12NCBI
CLEC4G
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38197,728,957 - 7,732,110 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl197,728,957 - 7,733,906 (-)EnsemblGRCh38hg38GRCh38
GRCh37197,793,843 - 7,796,996 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36197,699,850 - 7,703,005 (-)NCBINCBI36Build 36hg18NCBI36
Build 34197,699,851 - 7,703,006NCBI
Celera197,664,968 - 7,668,182 (-)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef197,463,587 - 7,466,801 (-)NCBIHuRef
CHM1_1197,793,562 - 7,796,776 (-)NCBICHM1_1
T2T-CHM13v2.0197,729,985 - 7,733,138 (-)NCBIT2T-CHM13v2.0
Clec4g
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,757,066 - 3,770,695 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl83,757,064 - 3,770,651 (-)EnsemblGRCm39 Ensembl
GRCm3883,707,066 - 3,720,695 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,707,064 - 3,720,651 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,716,071 - 3,720,651 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3683,716,077 - 3,720,651 (-)NCBIMGSCv36mm8
Celera83,946,232 - 3,950,812 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
Clec4g
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555631,571,288 - 1,575,979 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555631,571,374 - 1,574,901 (+)NCBIChiLan1.0ChiLan1.0
CLEC4G
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1197,870,550 - 7,873,699 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl197,870,730 - 7,873,631 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0197,015,848 - 7,019,396 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CLEC4G
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12052,476,162 - 52,480,341 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2052,476,200 - 52,479,930 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2052,279,523 - 52,283,613 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02053,005,016 - 53,009,106 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2053,005,022 - 53,009,242 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12052,208,486 - 52,218,901 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02052,652,069 - 52,656,165 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02052,883,279 - 52,887,375 (-)NCBIUU_Cfam_GSD_1.0
Clec4g
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118213,094,033 - 213,097,594 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365884,738,182 - 4,740,750 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365884,737,278 - 4,740,750 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC4G
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl271,433,421 - 71,436,567 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1271,433,406 - 71,436,570 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2271,967,726 - 71,970,446 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103233812
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.167,206,303 - 7,211,213 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl67,206,712 - 7,209,431 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666081636,814 - 640,084 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clec4g
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624828773,569 - 778,615 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624828775,114 - 778,526 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Clec4g
21 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:38
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000061719
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)127977298525593Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat


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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 10 10 2 10 3
Low 2 2 17 17 9 17 5 8
Below cutoff 39 13 6 4 6 1 2 5 9 16 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000078078   ⟹   ENSRNOP00000068921
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,780,371 - 1,784,985 (-)Ensembl
Rnor_6.0 Ensembl122,273,941 - 2,277,169 (-)Ensembl
RefSeq Acc Id: XM_039089898   ⟹   XP_038945826
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,780,370 - 1,785,027 (-)NCBI
RefSeq Acc Id: XM_039089899   ⟹   XP_038945827
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,780,370 - 1,785,027 (-)NCBI
RefSeq Acc Id: XM_039089900   ⟹   XP_038945828
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,780,370 - 1,784,990 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038945826 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945827 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945828 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: ENSRNOP00000068921   ⟸   ENSRNOT00000078078
RefSeq Acc Id: XP_038945827   ⟸   XM_039089899
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038945826   ⟸   XM_039089898
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JU13 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038945828   ⟸   XM_039089900
- Peptide Label: isoform X3
Protein Domains
C-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JU13-F1-model_v2 AlphaFold A0A0G2JU13 1-278 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597482 AgrOrtholog
BioCyc Gene G2FUF-20380 BioCyc
Ensembl Genes ENSRNOG00000054013 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068921 ENTREZGENE
  ENSRNOP00000068921.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000078078 ENTREZGENE
  ENSRNOT00000078078.2 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 689004 ENTREZGENE
Pfam Lectin_C UniProtKB/TrEMBL
PhenoGen Clec4g PhenoGen
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/TrEMBL
UniProt A0A0G2JU13 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Clec4g  C-type lectin domain family 4, member G  LOC689004  similar to C-type lectin domain family 4, member g  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC689004  similar to C-type lectin domain family 4, member g      Symbol and Name status set to provisional 70820 PROVISIONAL