Cd4 (CD4 antigen) - Rat Genome Database

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Gene: Cd4 (CD4 antigen) Mus musculus
Analyze
Symbol: Cd4
Name: CD4 antigen
RGD ID: 10309
MGI Page MGI
Description: Predicted to enable several functions, including interleukin-16 binding activity; interleukin-16 receptor activity; and protein homodimerization activity. Involved in cell surface receptor signaling pathway and helper T cell enhancement of adaptive immune response. Acts upstream of or within several processes, including defense response to Gram-negative bacterium; positive regulation of calcium-mediated signaling; and positive regulation of peptidyl-tyrosine phosphorylation. Located in endoplasmic reticulum; external side of plasma membrane; and membrane raft. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system; and liver and biliary system. Used to study glycogen storage disease II. Human ortholog(s) of this gene implicated in immunodeficiency 79. Orthologous to human CD4 (CD4 molecule).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: L3T; L3T4; Ly-; Ly-4; T-cell differentiation antigen L3T4; T-cell surface antigen T4/Leu-3; T-cell surface glycoprotein CD4; T-cell surface glycoprotein CD4 precursor (T-cell surface antigen T4/Leu-3) (T-cell differentiation antigen L3T4)
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396124,841,656 - 124,865,210 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6124,841,655 - 124,865,184 (-)EnsemblGRCm39 Ensembl
GRCm386124,864,693 - 124,888,247 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6124,864,692 - 124,888,221 (-)EnsemblGRCm38mm10GRCm38
MGSCv376124,814,711 - 124,838,227 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366124,830,312 - 124,853,828 (-)NCBIMGSCv36mm8
Celera6126,540,818 - 126,564,333 (-)NCBICelera
Cytogenetic Map6F2NCBI
cM Map659.17NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (EXP)
(1->4)-beta-D-glucan  (EXP)
(S)-nicotine  (ISO)
1,2-dichloroethane  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
2-naphthylamine  (ISO)
3-chloropropane-1,2-diol  (ISO)
4,4'-sulfonyldiphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
aluminium hydroxide  (ISO)
ammonium chloride  (ISO)
amphetamine  (ISO)
antirheumatic drug  (ISO)
asbestos  (ISO)
benzene  (EXP)
benzo[a]pyrene  (EXP,ISO)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (EXP)
cis-caffeic acid  (EXP)
cisplatin  (ISO)
clofibrate  (EXP)
cocaine  (EXP)
Cuprizon  (ISO)
cyclophosphamide  (EXP)
cyclosporin A  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (EXP)
dichlorine  (ISO)
dichloroacetic acid  (EXP)
dichloromethane  (ISO)
dienogest  (ISO)
diethylstilbestrol  (EXP)
dimethylarsinic acid  (ISO)
endosulfan  (ISO)
epoxiconazole  (EXP)
ethanol  (ISO)
ethylbenzene  (ISO)
gentamycin  (ISO)
immunological adjuvant  (ISO)
lead(0)  (ISO)
Licochalcone B  (ISO)
methamphetamine  (ISO)
methotrexate  (ISO)
mifepristone  (ISO)
N-ethyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (ISO)
nickel atom  (ISO)
nicotine  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP)
perfluorohexanesulfonic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
Ptaquiloside  (EXP)
resveratrol  (EXP)
rimexolone  (ISO)
rotenone  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenite  (EXP,ISO)
sulindac sulfide  (ISO)
testosterone  (ISO)
tetrachloroethene  (EXP)
theophylline  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP)
toluene 2,4-diisocyanate  (EXP)
trans-caffeic acid  (EXP)
trichloroethene  (ISO)
triphenyl phosphate  (ISO)
triptonide  (EXP)
vinclozolin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
calcium-mediated signaling  (IDA)
cell adhesion  (IEA)
cell surface receptor signaling pathway  (IDA)
cellular response to granulocyte macrophage colony-stimulating factor stimulus  (IEA,ISO)
cellular response to ionomycin  (ISO)
defense response to Gram-negative bacterium  (IMP)
helper T cell enhancement of adaptive immune response  (IMP)
interleukin-15-mediated signaling pathway  (IBA,IEA,ISO)
macrophage differentiation  (IEA,ISO)
maintenance of protein location in cell  (ISO)
peptidyl-tyrosine phosphorylation  (IDA)
positive regulation of calcium ion transport into cytosol  (ISO)
positive regulation of calcium-mediated signaling  (IDA)
positive regulation of canonical NF-kappaB signal transduction  (IEA,ISO)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of ERK1 and ERK2 cascade  (IBA,IEA,ISO)
positive regulation of kinase activity  (ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of monocyte differentiation  (IEA,ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (IDA)
positive regulation of protein kinase activity  (IEA,ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of T cell activation  (IDA)
positive regulation of T cell proliferation  (ISO)
positive regulation of viral entry into host cell  (IEA,ISO)
regulation of calcium ion transport  (IEA,ISO)
regulation of T cell activation  (ISO)
response to estradiol  (ISO)
response to ethanol  (ISO)
response to methamphetamine hydrochloride  (ISO)
response to vitamin D  (ISO)
T cell activation  (IBA,IDA)
T cell differentiation  (ISO,ISS)
T cell selection  (ISO,ISS)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal bile salt level  (IAGP)
abnormal CD4-positive, alpha beta T cell morphology  (IEA)
abnormal CD4-positive, alpha-beta T cell physiology  (IAGP)
abnormal CD8-positive, alpha beta T cell morphology  (IAGP)
abnormal cytokine secretion  (IAGP)
abnormal double-negative T cell morphology  (IAGP)
abnormal double-positive T cell morphology  (IEA)
abnormal gamma-delta T cell number  (IAGP)
abnormal immune system organ morphology  (IAGP)
abnormal interleukin-4 secretion  (IAGP)
abnormal lymph node T cell domain morphology  (IAGP)
abnormal lymphocyte activation involved in immune response  (IAGP)
abnormal regulatory T cell physiology  (IAGP)
abnormal skin condition  (IAGP)
abnormal spleen morphology  (IAGP)
abnormal T cell differentiation  (IAGP)
abnormal T cell number  (IAGP)
abnormal T cell physiology  (IAGP)
abnormal T-helper 17 cell differentiation  (IAGP)
abnormal T-helper 2 physiology  (IAGP)
absent CD4-positive, alpha-beta T cells  (IAGP)
absent plasma cells  (IAGP)
brain inflammation  (IAGP)
decreased CD4-positive, alpha-beta T cell number  (IAGP)
decreased cytotoxic T cell cytolysis  (IAGP)
decreased double-positive T cell number  (IAGP)
decreased IgG level  (IAGP)
decreased IgM level  (IAGP)
decreased immunoglobulin level  (IAGP)
decreased susceptibility to autoimmune diabetes  (IAGP)
decreased susceptibility to experimental autoimmune encephalomyelitis  (IAGP)
decreased T cell number  (IEA)
decreased T cell proliferation  (IAGP)
decreased T helper 1 cell number  (IAGP)
demyelination  (IAGP)
enlarged lymph nodes  (IAGP)
impaired humoral immune response  (IEA)
increased anti-double stranded DNA antibody level  (IAGP)
increased CD8-positive, alpha-beta T cell number  (IAGP)
increased double-negative T cell number  (IAGP)
increased IgG level  (IAGP)
increased IgM level  (IAGP)
increased interleukin-4 secretion  (IAGP)
increased interleukin-6 secretion  (IAGP)
increased length of allograft survival  (IAGP)
increased memory T cell number  (IAGP)
increased regulatory T cell number  (IAGP)
increased single-positive T cell number  (IAGP)
increased susceptibility to autoimmune diabetes  (IAGP)
increased susceptibility to parasitic infection  (IAGP)
increased susceptibility to Picornaviridae infection  (IAGP)
increased susceptibility to viral infection  (IAGP)
increased T cell apoptosis  (IAGP)
increased T cell proliferation  (IAGP)
increased tumor necrosis factor secretion  (IAGP)
premature death  (IAGP)
small intestinal inflammation  (IAGP)
small thymus medulla  (IAGP)
thymus hyperplasia  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Prolongation of rat corneal graft survival by treatment with anti-CD4 monoclonal antibody. Ayliffe W, etal., Br J Ophthalmol. 1992 Oct;76(10):602-6.
2. Non-depleting anti-CD4, but not anti-CD8, antibody induces long-term survival of xenogeneic and allogeneic hearts in alpha1,3-galactosyltransferase knockout (GT-Ko) mice. Chong AS, etal., Xenotransplantation. 2000 Nov;7(4):275-83.
3. Down-regulation of cell-surface CD4 co-receptor expression and modulation of experimental allergic encephalomyelitis. Fiori P, etal., Int Immunol. 1997 Apr;9(4):541-5.
4. Experimental autoallergic sialadenitis in the LEW rat. III. Role of CD4+ T cells in EAS induction. Greiner DL, etal., Cell Immunol. 1991 Jul;135(2):354-9.
5. Sex differences and the effects of alcohol on immune response in male and female rats. Grossman CJ, etal., Alcohol Clin Exp Res. 1993 Aug;17(4):832-40. doi: 10.1111/j.1530-0277.1993.tb00850.x.
6. Elucidating the molecular physiopathology of acute respiratory distress syndrome in severe acute respiratory syndrome patients. Kong SL, etal., Virus Res. 2009 Nov;145(2):260-9. Epub 2009 Jul 25.
7. Clinical and pathological investigation of severe COVID-19 patients. Li S, etal., JCI Insight. 2020 May 19. pii: 138070. doi: 10.1172/jci.insight.138070.
8. Host response to mycobacterial infection in the alcoholic rat: male and female dimorphism. Li X, etal., Alcohol. 1998 Oct;16(3):207-12. doi: 10.1016/s0741-8329(98)00004-4.
9. Gene and pseudogene of the mouse cation-dependent mannose 6-phosphate receptor. Genomic organization, expression, and chromosomal localization. Ludwig T, etal., J Biol Chem 1992 Jun 15;267(17):12211-9.
10. Methamphetamine decreases CD4 T cell frequency and alters pro-inflammatory cytokine production in a model of drug abuse. Mata MM, etal., Eur J Pharmacol. 2015 Apr 5;752:26-33. doi: 10.1016/j.ejphar.2015.02.002. Epub 2015 Feb 10.
11. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
12. MGDs mouse GO annotations MGD data from the GO Consortium
13. MGD IEA MGD IEA
14. Suppression in murine experimental autoimmune thyroiditis: in vivo inhibition of CD4+ T cell-mediated resistance by a nondepleting rat CD4 monoclonal antibody. Nabozny GH, etal., Cell Immunol. 1991 Nov;138(1):185-96.
15. Anti-CD4 monoclonal antibody treatment in acute and early chronic antigen induced arthritis: influence on macrophage activation. Nissler K, etal., Ann Rheum Dis. 2004 Nov;63(11):1470-7.
16. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
17. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
18. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
19. Differential clinical efficacy of anti-CD4 monoclonal antibodies in rat adjuvant arthritis is paralleled by differential influence on NF-kappaB binding activity and TNF-alpha secretion of T cells. Pohlers D, etal., Arthritis Res. 2002;4(3):184-9. Epub 2002 Jan 8.
20. Mouse MP Annotation Import Pipeline RGD automated import pipeline
21. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
23. Effects of BWH-4 anti-CD4 monoclonal antibody on rat vascularized cardiac allografts before and after engraftment. Sayegh MH, etal., Transplantation. 1991 Feb;51(2):296-9.
24. The mechanism of inhibition of experimental allergic encephalomyelitis in the rat by monoclonal antibody against CD4. Sedgwick JD and Mason DW, J Neuroimmunol. 1986 Dec;13(2):217-32.
25. Brain macrophage surface marker expression with HIV-1 infection and drug abuse: a preliminary study. Shapshak P, etal., J NeuroAIDS. 2002;2(3):37-50. doi: 10.1300/j128v02n03_03.
26. Suppression of experimental antiphospholipid syndrome and systemic lupus erythematosus in mice by anti-CD4 monoclonal antibodies. Tomer Y, etal., Arthritis Rheum. 1994 Aug;37(8):1236-44.
27. Treatment of rats with monoclonal anti-CD4 induces long-term resistance to streptococcal cell wall-induced arthritis. Van den Broek MF, etal., Eur J Immunol. 1992 Jan;22(1):57-61.
28. Immune environment modulation in pneumonia patients caused by coronavirus: SARS-CoV, MERS-CoV and SARS-CoV-2. Yao Z, etal., Aging (Albany NY). 2020 May 2;12(9):7639-7651. doi: 10.18632/aging.103101. Epub 2020 May 2.
Additional References at PubMed
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PMID:19077880   PMID:19095793   PMID:19104149   PMID:19151321   PMID:19155973   PMID:19164599   PMID:19180471   PMID:19192224   PMID:19208751   PMID:19251786   PMID:19349303   PMID:19380791  
PMID:19414746   PMID:19414791   PMID:19443735   PMID:19448155   PMID:19494813   PMID:19528638   PMID:19602726   PMID:19605470   PMID:19641139   PMID:19647220   PMID:19666526   PMID:19668367  
PMID:19692644   PMID:19696430   PMID:19715717   PMID:19723499   PMID:19747858   PMID:19759824   PMID:19767568   PMID:19770521   PMID:19777054   PMID:19783990   PMID:19838199   PMID:19923452  
PMID:19923462   PMID:19924136   PMID:19934022   PMID:20080755   PMID:20086176   PMID:20208005   PMID:20230796   PMID:20237296   PMID:20305583   PMID:20308634   PMID:20360383   PMID:20381429  
PMID:20391435   PMID:20399120   PMID:20404099   PMID:20463063   PMID:20463654   PMID:20515925   PMID:20546740   PMID:20605978   PMID:20634377   PMID:20639459   PMID:20659336   PMID:20706986  
PMID:20709950   PMID:20720198   PMID:20733203   PMID:20826747   PMID:20844201   PMID:20849916   PMID:20881183   PMID:20956339   PMID:21040907   PMID:21071017   PMID:21094858   PMID:21098236  
PMID:21157037   PMID:21160039   PMID:21170379   PMID:21364747   PMID:21419643   PMID:21430066   PMID:21435585   PMID:21436315   PMID:21453718   PMID:21460206   PMID:21460207   PMID:21460847  
PMID:21496498   PMID:21508411   PMID:21518973   PMID:21538579   PMID:21555577   PMID:21590767   PMID:21704012   PMID:21745657   PMID:21873191   PMID:21873528   PMID:21873635   PMID:21911709  
PMID:21928285   PMID:21966415   PMID:21980291   PMID:22036949   PMID:22056381   PMID:22057872   PMID:22072979   PMID:22080947   PMID:22083206   PMID:22138498   PMID:22155173   PMID:22209676  
PMID:22354871   PMID:22388323   PMID:22403638   PMID:22425249   PMID:22431638   PMID:22437418   PMID:22484915   PMID:22493083   PMID:22496155   PMID:22540016   PMID:22545118   PMID:22551552  
PMID:22564624   PMID:22564626   PMID:22649199   PMID:22675532   PMID:22730043   PMID:22732593   PMID:22786774   PMID:22802417   PMID:22802622   PMID:22826324   PMID:22829762   PMID:22837486  
PMID:22908323   PMID:22940098   PMID:23079658   PMID:23132945   PMID:23169063   PMID:23209328   PMID:23293358   PMID:23315072   PMID:23447019   PMID:23454765   PMID:23526822   PMID:23545296  
PMID:23709683   PMID:23756229   PMID:23851682   PMID:24034254   PMID:24078700   PMID:24108445   PMID:24109240   PMID:24115907   PMID:24227783   PMID:24347665   PMID:24478090   PMID:24594519  
PMID:24614654   PMID:24633552   PMID:24657994   PMID:24670648   PMID:24729613   PMID:24912173   PMID:24928989   PMID:24938765   PMID:24963147   PMID:25003188   PMID:25400914   PMID:25536344  
PMID:25548153   PMID:25630465   PMID:25770130   PMID:25829544   PMID:25862091   PMID:25916989   PMID:26030024   PMID:26070118   PMID:26114424   PMID:26154056   PMID:26214742   PMID:26367121  
PMID:26404745   PMID:26472910   PMID:26488883   PMID:26597007   PMID:26607794   PMID:26928119   PMID:26957522   PMID:27010430   PMID:27015456   PMID:27226368   PMID:27255083   PMID:27488533  
PMID:27599295   PMID:27623309   PMID:27642729   PMID:27653694   PMID:27671676   PMID:27739478   PMID:27771254   PMID:27932444   PMID:27965054   PMID:28017833   PMID:28064242   PMID:28250157  
PMID:28255084   PMID:28371798   PMID:28468970   PMID:28494873   PMID:28542128   PMID:28607116   PMID:28607488   PMID:28709801   PMID:28731407   PMID:28754678   PMID:28768726   PMID:28839093  
PMID:29028486   PMID:29069606   PMID:29143824   PMID:29196449   PMID:29246441   PMID:29309879   PMID:29352114   PMID:29760194   PMID:29773802   PMID:29915296   PMID:30002144   PMID:30044874  
PMID:30111869   PMID:30185787   PMID:30185805   PMID:30232334   PMID:30355615   PMID:30355617   PMID:30359308   PMID:30571485   PMID:30638736   PMID:30944247   PMID:30962403   PMID:30975723  
PMID:30988302   PMID:31069134   PMID:31112530   PMID:31201093   PMID:31471526   PMID:31644426   PMID:31880771   PMID:31889023   PMID:31911451   PMID:31980640   PMID:32087088   PMID:32294451  
PMID:32404525   PMID:32439494   PMID:32452837   PMID:32553167   PMID:32561639   PMID:32625209   PMID:32726802   PMID:32888430   PMID:32956832   PMID:32996581   PMID:33027650   PMID:33238133  
PMID:33329524   PMID:33515487   PMID:33707780   PMID:33771995   PMID:34022203   PMID:34037780   PMID:34117110   PMID:34183017   PMID:34220551   PMID:34247492   PMID:34321274   PMID:34323105  
PMID:34471108   PMID:34562377   PMID:34678150   PMID:34737297   PMID:34795669   PMID:34811541   PMID:34858415   PMID:34958108   PMID:35003132   PMID:35121655   PMID:35140112   PMID:35141943  
PMID:35228603   PMID:35304452   PMID:35358427   PMID:35373853   PMID:35385550   PMID:35464453   PMID:35523960   PMID:35879451   PMID:35986378   PMID:36027915   PMID:36265442   PMID:36302761  
PMID:36458554   PMID:36544781   PMID:36694226   PMID:36867683   PMID:36993971   PMID:37055914   PMID:37058116   PMID:37160119   PMID:37474652   PMID:37651234   PMID:37669937   PMID:37729431  
PMID:37809058   PMID:37858196   PMID:37864794   PMID:37967010   PMID:38053332   PMID:38427718   PMID:38618959   PMID:38935717   PMID:39168127  


Genomics

Comparative Map Data
Cd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396124,841,656 - 124,865,210 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6124,841,655 - 124,865,184 (-)EnsemblGRCm39 Ensembl
GRCm386124,864,693 - 124,888,247 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6124,864,692 - 124,888,221 (-)EnsemblGRCm38mm10GRCm38
MGSCv376124,814,711 - 124,838,227 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366124,830,312 - 124,853,828 (-)NCBIMGSCv36mm8
Celera6126,540,818 - 126,564,333 (-)NCBICelera
Cytogenetic Map6F2NCBI
cM Map659.17NCBI
CD4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,789,528 - 6,820,799 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,786,858 - 6,820,799 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,898,694 - 6,929,965 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,768,912 - 6,800,237 (+)NCBINCBI36Build 36hg18NCBI36
Build 34126,769,004 - 6,800,235NCBI
Celera128,515,970 - 8,547,252 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef126,751,975 - 6,783,457 (+)NCBIHuRef
CHM1_1126,897,616 - 6,928,653 (+)NCBICHM1_1
T2T-CHM13v2.0126,799,096 - 6,830,079 (+)NCBIT2T-CHM13v2.0
Cd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,355,147 - 159,381,636 (-)NCBIGRCr8
mRatBN7.24157,668,878 - 157,695,366 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx4163,898,594 - 163,923,791 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04159,681,509 - 159,706,706 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,316,780 - 158,341,976 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,381,862 - 157,408,357 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,383,052 - 157,408,176 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,399,640 - 224,426,134 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44160,988,512 - 161,014,038 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14161,250,744 - 161,258,974 (-)NCBI
Celera4146,407,680 - 146,432,465 (-)NCBICelera
RH 3.4 Map41003.4RGD
Cytogenetic Map4q42NCBI
Cd4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554134,408,390 - 4,421,535 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554134,400,326 - 4,422,110 (+)NCBIChiLan1.0ChiLan1.0
CD4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21012,351,536 - 12,383,120 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11212,348,648 - 12,379,881 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0126,920,587 - 6,951,814 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,834,011 - 6,864,204 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,834,011 - 6,864,204 (+)Ensemblpanpan1.1panPan2
CD4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12738,204,003 - 38,250,771 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2738,204,003 - 38,250,771 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha278,365,799 - 8,412,893 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02738,555,396 - 38,606,503 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2738,555,402 - 38,603,703 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12738,430,814 - 38,477,462 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02738,472,036 - 38,518,728 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0277,845,022 - 7,891,631 (+)NCBIUU_Cfam_GSD_1.0
Cd4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945102,330,202 - 102,362,409 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936709997,750 - 1,022,884 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936709997,776 - 1,022,791 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl563,892,137 - 63,918,519 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1563,892,129 - 63,918,547 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2566,326,568 - 66,353,856 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CD4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1116,824,797 - 6,856,440 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl116,825,245 - 6,853,852 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660631,369,850 - 1,398,777 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248603,470,631 - 3,492,846 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248603,470,886 - 3,492,247 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cd4
611 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1446
Count of miRNA genes:643
Interacting mature miRNAs:810
Transcripts:ENSMUST00000024044, ENSMUST00000130378, ENSMUST00000145818, ENSMUST00000145977, ENSMUST00000151594
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142079Skmw15_mskeletal muscle weight 15 (mouse)Not determined6116829851149588044Mouse
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683690851146954059Mouse
11252138Clas1_mcarcinogen-induced lung adenoma susceptibility 1 (mouse)6112246918146954059Mouse
10449436Pas17_mpulmonary adenoma susceptibility 17 (mouse)6124334273145601739Mouse
1300887Pabr1_mplasma apolipoprotein B (human) regulator 1 (mouse)Not determined6103754405136400690Mouse
1301915Chab3_mcholesterol absorption 3 (mouse)Not determined698908709132916997Mouse
1301083Bhr5_mbronchial hyperresponsiveness 5 (mouse)Not determined6115694477132578150Mouse
1301658Radpf3_mradiation pulmonary fibrosis 3 (mouse)Not determined6115219814146330736Mouse
10043923Bhr7_mbronchial hyperresponsiveness 7 (mouse)Not determined698219814132219938Mouse
4140980Mvwf2_mmodifier of von Willebrand factor 2 (mouse)Not determined114345693145601739Mouse
4141940W6q5_mweight 6 weeks QTL 5 (mouse)Not determined96632912146535124Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648696934125336963Mouse
4141295Rua_mraffinose acetate tasting (mouse)Not determined115546805149549364Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648696934148351498Mouse
1301509Sluc3_msusceptibility to lung cancer 3 (mouse)Not determined6104480321127019938Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648703490125333748Mouse
1301518Bbaa5_mB.burgdorferi-associated arthritis 5 (mouse)Not determined698483798145881170Mouse
11353842Bmiq4_mbody mass index QTL 4 (mouse)692584287146330736Mouse
1302131Bmd8_mbone mineral density 8 (mouse)Not determined699132089133132228Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
1357555Tesq2_mtestis weight QTL 2 (mouse)Not determined696632912146535124Mouse
10043891Tilss4_mTNF-induced lethal shock susceptibility 3 (mouse)Not determined6112246918125333748Mouse
4142416Egq11_mearly growth QTL 11 (mouse)Not determined96632912146535124Mouse
1301923Lith6_mlithogenic gene 6 (mouse)Not determined698694477132694676Mouse
10412207Cypr5_mcytokine production 5 (mouse)Not determined6110815180144815323Mouse
1300704Cia3_mcollagen induced arthritis QTL 3 (mouse)Not determined696324286130324483Mouse
1301152Athsq2_matherosclerosis susceptibility QTL 2 (mouse)Not determined6117059949149588044Mouse
1301927Etohcta6_methanol conditioned taste aversion 6 (mouse)Not determined6115578005149578150Mouse
13463481Mcvq14_mmean corpuscular volume QTL 14 (mouse)6111142448145142541Mouse
4141194Cyx_mcycloheximide tasting (mouse)Not determined115546805149549364Mouse
4141064Ath37_matherosclerosis 37 (mouse)Not determined6116641858128495988Mouse
1357806Aaj3_manxiety in A/J 3 (mouse)Not determined6104480321136400690Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673476983134676963Mouse
4141889Qui_mquinine sensitivity, taste (mouse)Not determined115546805149549364Mouse
1301804Bulb2_mbulb size 2 (mouse)Not determined6120416806149588044Mouse
1301292Cfbw2_mcystic fibrosis body weight 2 (mouse)Not determined694981612128981699Mouse
11040599Lmr4b_mleishmaniasis resistance 4b (mouse)696324286130324483Mouse

Markers in Region
D6Mit24  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm386124,865,122 - 124,865,236UniSTSGRCm38
MGSCv376124,815,140 - 124,815,254UniSTSGRCm37
Celera6126,541,247 - 126,541,361UniSTS
Cytogenetic Map6F2UniSTS
cM Map660.18UniSTS
Whitehead Genetic649.2UniSTS
X04836  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6F2UniSTS
cM Map660.18UniSTS
Whitehead/MRC_RH61261.02UniSTS
Cd4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6F2UniSTS
cM Map660.18UniSTS
Cd4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm386124,865,433 - 124,865,555UniSTSGRCm38
MGSCv376124,815,451 - 124,815,573UniSTSGRCm37
Celera6126,541,558 - 126,541,680UniSTS
Cytogenetic Map6F2UniSTS
cM Map660.18UniSTS
Cd4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm386124,864,821 - 124,864,924UniSTSGRCm38
MGSCv376124,814,839 - 124,814,942UniSTSGRCm37
Celera6126,540,946 - 126,541,049UniSTS
Cytogenetic Map6F2UniSTS
cM Map660.18UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_013488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC002397 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC142254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF045882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF088189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH001876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK040115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153966 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161775 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX639790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS104358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M13816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M36850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M36851 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M75688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U75219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000024044   ⟹   ENSMUSP00000024044
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6124,841,655 - 124,865,184 (-)Ensembl
GRCm38.p6 Ensembl6124,864,692 - 124,888,221 (-)Ensembl
Ensembl Acc Id: ENSMUST00000130378
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6124,855,704 - 124,865,163 (-)Ensembl
GRCm38.p6 Ensembl6124,878,741 - 124,888,200 (-)Ensembl
Ensembl Acc Id: ENSMUST00000145818
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6124,843,691 - 124,847,452 (-)Ensembl
GRCm38.p6 Ensembl6124,866,728 - 124,870,489 (-)Ensembl
Ensembl Acc Id: ENSMUST00000145977
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6124,843,591 - 124,847,235 (-)Ensembl
GRCm38.p6 Ensembl6124,866,628 - 124,870,272 (-)Ensembl
Ensembl Acc Id: ENSMUST00000151594
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl6124,844,296 - 124,865,162 (-)Ensembl
GRCm38.p6 Ensembl6124,867,333 - 124,888,199 (-)Ensembl
RefSeq Acc Id: NM_013488   ⟹   NP_038516
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396124,841,656 - 124,865,163 (-)NCBI
GRCm386124,864,693 - 124,888,200 (-)NCBI
MGSCv376124,814,711 - 124,838,227 (-)RGD
Celera6126,540,818 - 126,564,333 (-)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006505461   ⟹   XP_006505524
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396124,843,648 - 124,865,210 (-)NCBI
GRCm386124,866,685 - 124,888,247 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006505462   ⟹   XP_006505525
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396124,841,659 - 124,865,209 (-)NCBI
GRCm386124,864,696 - 124,888,246 (-)NCBI
Sequence:
RefSeq Acc Id: NP_038516   ⟸   NM_013488
- Peptide Label: precursor
- UniProtKB: P06332 (UniProtKB/Swiss-Prot),   Q3TSV7 (UniProtKB/TrEMBL),   Q61396 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006505525   ⟸   XM_006505462
- Peptide Label: isoform X2
- UniProtKB: Q61396 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006505524   ⟸   XM_006505461
- Peptide Label: isoform X1
- UniProtKB: Q61396 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000024044   ⟸   ENSMUST00000024044
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P06332-F1-model_v2 AlphaFold P06332 1-457 view protein structure

Promoters
RGD ID:6891004
Promoter ID:EPDNEW_M8953
Type:initiation region
Name:Cd4_1
Description:Mus musculus CD4 antigen , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm386124,888,200 - 124,888,260EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:88335 AgrOrtholog
Ensembl Genes ENSMUSG00000023274 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000024044 ENTREZGENE
  ENSMUST00000024044.7 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  transmembrane domain of human cd4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CD4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD4-extracel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_C2-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tcell_CD4_Cterm UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12504 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:88335 ENTREZGENE
NCBI Gene 12504 ENTREZGENE
PANTHER PTHR11422:SF0 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  T-CELL SURFACE GLYCOPROTEIN CD4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam C2-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD4-extracel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00047 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tcell_CD4_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd4 PhenoGen
PRINTS CD4TCANTIGEN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGv UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CD4_MOUSE UniProtKB/Swiss-Prot
  O55054_MOUSE UniProtKB/TrEMBL
  P06332 ENTREZGENE
  P70443_MOUSE UniProtKB/TrEMBL
  Q3TSV7 ENTREZGENE, UniProtKB/TrEMBL
  Q61396 ENTREZGENE, UniProtKB/TrEMBL