Cd4 (Cd4 molecule) - Rat Genome Database

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Gene: Cd4 (Cd4 molecule) Rattus norvegicus
Symbol: Cd4
Name: Cd4 molecule
RGD ID: 2306
Description: Enables immunoglobulin binding activity; protein tyrosine kinase binding activity; and signaling receptor binding activity. Involved in several processes, including positive regulation of calcium ion transport into cytosol; response to estradiol; and response to vitamin D. Located in external side of plasma membrane. Used to study septic arthritis and sialadenitis. Human ortholog(s) of this gene implicated in immunodeficiency 79. Orthologous to human CD4 (CD4 molecule); PARTICIPATES IN Arf family mediated signaling pathway; interleukin-12 signaling pathway; interleukin-23 signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
Previously known as: CD4 antigen; CD4 antigen (p55); p55; T-cell surface antigen T4/Leu-3; T-cell surface glycoprotein CD4; W3/25; W3/25 antigen
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Ciaa4 Cia24
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
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
JBrowse: View Region in Genome Browser (JBrowse)

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

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component


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. Comparison of CD22 binding to native CD45 and synthetic oligosaccharide. Bakker TR, etal., Eur J Immunol. 2002 Jul;32(7):1924-32. doi: 10.1002/1521-4141(200207)32:7<1924::AID-IMMU1924>3.0.CO;2-N.
3. Molecular associations between the T-lymphocyte antigen receptor complex and the surface antigens CD2, CD4, or CD8 and CD5. Beyers AD, etal., Proc Natl Acad Sci U S A. 1992 Apr 1;89(7):2945-9.
4. 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.
5. Peptide and nucleotide sequences of rat CD4 (W3/25) antigen: evidence for derivation from a structure with four immunoglobulin-related domains. Clark SJ, etal., Proc Natl Acad Sci U S A 1987 Mar;84(6):1649-53.
6. Crystallization of a soluble form of the rat T-cell surface glycoprotein CD4 complexed with Fab from the W3/25 monoclonal antibody. Davis SJ, etal., J Mol Biol. 1990 May 5;213(1):7-10.
7. 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.
8. The level of CD4 surface protein influences T cell selection in the thymus. Frank GD and Parnes JR, J Immunol. 1998 Jan 15;160(2):634-42.
9. Genetic dissection of a rat model for rheumatoid arthritis: significant gender influences on autosomal modifier loci Furuya T, etal., Hum Mol Genet 2000 Sep 22;9(15):2241-50
10. 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.
11. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
12. 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.
13. Study of the HIV-1 receptors CD4, CXCR4, CCR5 and CCR3 in the human and rat testis. Habasque C, etal., Mol Hum Reprod 2002 May;8(5):419-25.
14. Authentic T helper CD4 (W3/25) antigen on rat peritoneal macrophages. Jefferies WA, etal., J Exp Med. 1985 Jul 1;162(1):117-27.
15. 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.
16. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
17. 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.
18. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
19. 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.
20. Better-surviving liver grafts by the injection of anti-CD2 antibody: the important roles of host CD8+ and CD2+CD28+ T cells in chronic graft rejection and beta type platelet-derived growth factor receptor (PDGFR-beta) expression on apoptotic liver grafts. Nakatsuji T Tohoku J Exp Med. 1999 Mar;187(3):215-25.
21. 1,25 Dihydroxyvitamin D3 exerts regional effects in the central nervous system during experimental allergic encephalomyelitis. Nataf S, etal., J Neuropathol Exp Neurol. 1996 Aug;55(8):904-14.
22. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. 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.
24. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
25. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
26. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
27. 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.
28. CD4 expression decrease by antisense oligonucleotides: inhibition of rat T CD4+ cell reactivity. Rabanal M, etal., Oligonucleotides. 2003;13(4):217-28.
29. GOA pipeline RGD automated data pipeline
30. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
31. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
32. Function of CD4 molecules in LEC rat thymocytes. Sakai T, etal., J Vet Med Sci. 1996 Nov;58(11):1125-7.
33. 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.
34. 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.
35. Signal for T-cell differentiation to a CD4 cell lineage is delivered by CD4 transmembrane region and/or cytoplasmic tail. Seong RH, etal., Nature. 1992 Apr 23;356(6371):718-20.
36. 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.
37. 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.
38. Phenotype and function of GM-CSF independent dendritic cells generated by long-term propagation of rat bone marrow cells. Yan H, etal., Cell Immunol. 2004 Jun;229(2):117-29. doi: 10.1016/j.cellimm.2004.07.006.
39. 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.
40. Differential expression of estrogen-regulated CD4 and Ia positive cells in the immature rat uterus. Zheng Y, etal., J Leukoc Biol. 1989 Nov;46(5):493-6.
Additional References at PubMed
PMID:1832488   PMID:1901411   PMID:2113054   PMID:2118992   PMID:2784195   PMID:2823150   PMID:3262426   PMID:7477352   PMID:7477353   PMID:7486703   PMID:7589135   PMID:7630421  
PMID:7688139   PMID:7930593   PMID:8124721   PMID:8493535   PMID:8512039   PMID:8524870   PMID:8612131   PMID:8755570   PMID:8769481   PMID:8788039   PMID:9133426   PMID:9166430  
PMID:9168119   PMID:9208839   PMID:9668045   PMID:10072077   PMID:10704459   PMID:10943842   PMID:11390434   PMID:11535811   PMID:12421911   PMID:12444132   PMID:14517216   PMID:14609575  
PMID:14688352   PMID:15128768   PMID:15322158   PMID:15368291   PMID:15728238   PMID:15795238   PMID:15843532   PMID:16223484   PMID:16287714   PMID:16455951   PMID:16973387   PMID:17082577  
PMID:17213291   PMID:17357106   PMID:17604280   PMID:18622289   PMID:18641307   PMID:18776904   PMID:18836449   PMID:19008373   PMID:19246105   PMID:19333378   PMID:19344468   PMID:19349303  
PMID:19376373   PMID:19723499   PMID:19838199   PMID:19934022   PMID:20399120   PMID:20706986   PMID:20709950   PMID:21460847   PMID:21508411   PMID:21745657   PMID:22072979   PMID:24942581  
PMID:26467126   PMID:29772575   PMID:34944007  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
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
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
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
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_0049554134,408,390 - 4,421,535 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554134,400,326 - 4,422,110 (+)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
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
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
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
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
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
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
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
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
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
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
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 in Cd4
200 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:220
Count of miRNA genes:132
Interacting mature miRNAs:147
Prediction methods:Microtar, 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 (
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
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4157680158158841762Rat
1581574Eae20Experimental allergic encephalomyelitis QTL 207.8nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4153031106158841762Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24157,670,088 - 157,670,262 (+)MAPPERmRatBN7.2
Rnor_6.04157,383,077 - 157,383,250NCBIRnor6.0
Rnor_5.04224,400,855 - 224,401,028UniSTSRnor5.0
RGSC_v3.44160,988,537 - 160,988,710UniSTSRGSC3.4
Celera4146,407,705 - 146,407,878UniSTS
RH 3.4 Map41003.4UniSTS
Cytogenetic Map4q42UniSTS


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
Medium 3 8 31 19 19 19 2 14 14 11
Low 25 22 18 18 8 11 72 21 24 8
Below cutoff 2 2 2 2 3


RefSeq Acc Id: ENSRNOT00000021915   ⟹   ENSRNOP00000021915
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4157,383,052 - 157,408,176 (-)Ensembl
RefSeq Acc Id: NM_012705   ⟹   NP_036837
Rat AssemblyChrPosition (strand)Source
GRCr84159,356,337 - 159,381,461 (-)NCBI
mRatBN7.24157,670,064 - 157,695,191 (-)NCBI
Rnor_6.04157,383,052 - 157,408,176 (-)NCBI
Rnor_5.04224,399,640 - 224,426,134 (-)NCBI
RGSC_v3.44160,988,512 - 161,014,038 (-)RGD
Celera4146,407,680 - 146,432,465 (-)RGD
RefSeq Acc Id: XM_006237331   ⟹   XP_006237393
Rat AssemblyChrPosition (strand)Source
GRCr84159,355,147 - 159,381,635 (-)NCBI
mRatBN7.24157,668,878 - 157,695,365 (-)NCBI
Rnor_6.04157,381,862 - 157,408,355 (-)NCBI
Rnor_5.04224,399,640 - 224,426,134 (-)NCBI
RefSeq Acc Id: XM_039107080   ⟹   XP_038963008
Rat AssemblyChrPosition (strand)Source
GRCr84159,357,312 - 159,381,636 (-)NCBI
mRatBN7.24157,670,979 - 157,695,366 (-)NCBI
RefSeq Acc Id: NP_036837   ⟸   NM_012705
- Peptide Label: precursor
- UniProtKB: P05540 (UniProtKB/Swiss-Prot),   A6ILM7 (UniProtKB/TrEMBL),   A6ILM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006237393   ⟸   XM_006237331
- Peptide Label: isoform X1
- UniProtKB: P05540 (UniProtKB/Swiss-Prot),   A6ILM7 (UniProtKB/TrEMBL),   A6ILM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000021915   ⟸   ENSRNOT00000021915
RefSeq Acc Id: XP_038963008   ⟸   XM_039107080
- Peptide Label: isoform X2
- UniProtKB: A6ILM6 (UniProtKB/TrEMBL)
Protein Domains
Ig-like   Ig-like C2-type   Ig-like V-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P05540-F1-model_v2 AlphaFold P05540 1-457 view protein structure


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

RGD ID:13693403
Promoter ID:EPDNEW_R3918
Type:single initiation site
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Rat AssemblyChrPosition (strand)Source
Rnor_6.04157,374,417 - 157,374,477EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2306 AgrOrtholog
BioCyc Gene G2FUF-43056 BioCyc
Ensembl Genes ENSRNOG00000016294 Ensembl
  ENSRNOG00055010716 UniProtKB/Swiss-Prot
  ENSRNOG00060032587 UniProtKB/Swiss-Prot
  ENSRNOG00065029565 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000120323.1 UniProtKB/TrEMBL
  ENSRNOT00055018114 UniProtKB/Swiss-Prot
  ENSRNOT00060056461 UniProtKB/Swiss-Prot
  ENSRNOT00065051051 UniProtKB/Swiss-Prot
Gene3D-CATH 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 rno:24932 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PANTHER PTHR11422:SF0 UniProtKB/Swiss-Prot
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
RatGTEx ENSRNOG00000016294 RatGTEx
  ENSRNOG00000071219 RatGTEx
  ENSRNOG00055010716 RatGTEx
  ENSRNOG00060032587 RatGTEx
  ENSRNOG00065029565 RatGTEx
SMART IGv UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Immunoglobulin UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  CD4_RAT UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-29 Cd4  Cd4 molecule  Cd4  CD4 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Cd4  CD4 antigen    CD4 antigen (p55)  Name updated 625702 APPROVED
2002-06-10 Cd4  CD4 antigen (p55)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process has a role as receptor necessary for HIV infection in humans 632390