Cd3d (CD3 delta subunit of T-cell receptor complex) - Rat Genome Database

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Gene: Cd3d (CD3 delta subunit of T-cell receptor complex) Rattus norvegicus
Analyze
Symbol: Cd3d
Name: CD3 delta subunit of T-cell receptor complex
RGD ID: 2304
Description: Predicted to enable identical protein binding activity and transmembrane signaling receptor activity. Predicted to be involved in cell surface receptor signaling pathway and positive thymic T cell selection. Predicted to be located in plasma membrane. Predicted to be part of alpha-beta T cell receptor complex. Predicted to be active in external side of plasma membrane. Human ortholog(s) of this gene implicated in immunodeficiency 19 and severe combined immunodeficiency. Orthologous to human CD3D (CD3 delta subunit of T-cell receptor complex); PARTICIPATES IN adaptive immune response pathway; interleukin-12 signaling pathway; Chagas disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 7,12-dimethyltetraphene; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD3 antigen delta polypeptide; CD3 molecule delta polypeptide; CD3 molecule, delta; CD3d molecule; T-cell receptor T3 delta chain; T-cell surface glycoprotein CD3 delta chain
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8854,184,573 - 54,190,112 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl854,175,155 - 54,196,722 (+)EnsemblGRCr8
mRatBN7.2845,287,803 - 45,293,342 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl845,288,749 - 45,301,809 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx850,784,363 - 50,788,968 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0849,063,089 - 49,067,694 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0846,933,645 - 46,938,252 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0849,282,502 - 49,287,095 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl849,282,460 - 49,287,110 (+)Ensemblrn6Rnor6.0
Rnor_5.0847,900,331 - 47,905,113 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4847,932,151 - 47,936,744 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera844,873,511 - 44,878,104 (+)NCBICelera
RGSC_v3.1847,940,916 - 47,945,510 (+)NCBI
RH 3.4 Map8450.1RGD
Cytogenetic Map8q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
3-methylcholanthrene  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
7,12-dimethyltetraphene  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcidiol  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
dexamethasone  (ISO)
diethylstilbestrol  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
furan  (EXP)
gentamycin  (EXP)
hexachlorobenzene  (EXP)
hydroxychloroquine  (ISO)
isotretinoin  (ISO)
ketoconazole  (ISO)
methamphetamine  (EXP,ISO)
methotrexate  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nitrobenzenes  (EXP)
nitroglycerin  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
parathion  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulfasalazine  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
Tributyltin oxide  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Initiation of TCR signaling: regulation within CD3 dimers. Alarcon B, etal., Immunol Rev 2003 Feb;191:38-46.
2. Effect of CD3delta deficiency on maturation of alpha/beta and gamma/delta T-cell lineages in severe combined immunodeficiency. Dadi HK, etal., N Engl J Med 2003 Nov 6;349(19):1821-8.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. 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
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. Biochemical evidence for the presence of a single CD3delta and CD3gamma chain in the surface T cell receptor/CD3 complex. Pan Q, etal., J Biol Chem 2004 Dec 3;279(49):51068-74. Epub 2004 Sep 30.
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Comprehensive gene review and curation RGD comprehensive gene curation
16. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17. Isolation and characterization of a cDNA clone encoding the murine homologue of the human 20K T3/T-cell receptor glycoprotein. van den Elsen P, etal., Nature 1985 Apr 11-17;314(6011):542-4.
Additional References at PubMed
PMID:2017177   PMID:2143819   PMID:2395634   PMID:8176201   PMID:9135151   PMID:9208839   PMID:9485181   PMID:14967045  


Genomics

Comparative Map Data
Cd3d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8854,184,573 - 54,190,112 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl854,175,155 - 54,196,722 (+)EnsemblGRCr8
mRatBN7.2845,287,803 - 45,293,342 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl845,288,749 - 45,301,809 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx850,784,363 - 50,788,968 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0849,063,089 - 49,067,694 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0846,933,645 - 46,938,252 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0849,282,502 - 49,287,095 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl849,282,460 - 49,287,110 (+)Ensemblrn6Rnor6.0
Rnor_5.0847,900,331 - 47,905,113 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4847,932,151 - 47,936,744 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera844,873,511 - 44,878,104 (+)NCBICelera
RGSC_v3.1847,940,916 - 47,945,510 (+)NCBI
RH 3.4 Map8450.1RGD
Cytogenetic Map8q22NCBI
CD3D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811118,338,954 - 118,342,705 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11118,334,537 - 118,342,705 (-)Ensemblhg38GRCh38
GRCh3711118,209,669 - 118,213,420 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611117,714,999 - 117,718,669 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3411117,710,474 - 117,718,533NCBI
Celera11115,367,658 - 115,371,328 (-)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11114,143,683 - 114,147,356 (-)NCBIHuRef
CHM1_111118,096,225 - 118,099,892 (-)NCBICHM1_1
T2T-CHM13v2.011118,355,312 - 118,360,628 (-)NCBIT2T-CHM13v2.0
Cd3d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39944,893,067 - 44,898,350 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl944,893,084 - 44,898,637 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38944,981,769 - 44,987,052 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl944,981,786 - 44,987,339 (+)Ensemblmm10GRCm38
MGSCv37944,789,869 - 44,795,135 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36944,732,876 - 44,737,416 (+)NCBIMGSCv36mm8
Celera942,246,904 - 42,252,171 (+)NCBICelera
Cytogenetic Map9A5.2NCBI
cM Map924.84NCBI
Cd3d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541219,480,977 - 19,484,721 (-)Ensembl
ChiLan1.0NW_00495541219,481,059 - 19,484,890 (-)NCBIChiLan1.0ChiLan1.0
LOC100979946
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29119,038,840 - 119,044,827 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111120,145,509 - 120,149,139 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011113,174,007 - 113,179,244 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111117,105,868 - 117,111,051 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11117,105,868 - 117,111,051 (-)EnsemblpanPan2panpan1.1
CD3D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1515,392,841 - 15,396,745 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl515,389,243 - 15,396,750 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha515,443,561 - 15,447,497 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0515,335,138 - 15,339,065 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl515,331,562 - 15,339,070 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1515,473,389 - 15,477,325 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0515,376,847 - 15,380,783 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0515,417,998 - 15,421,934 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cd3d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947100,478,720 - 100,482,225 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365423,399,845 - 3,403,634 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365423,400,129 - 3,403,628 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD3D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl945,637,129 - 45,644,221 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1945,640,475 - 45,644,153 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2950,681,602 - 50,685,279 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CD3D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11109,715,148 - 109,719,576 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1109,713,017 - 109,719,950 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604316,315,112 - 16,320,264 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd3d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478413,733,403 - 13,737,356 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462478413,733,465 - 13,754,248 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cd3d
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1839,511,288 - 39,515,901 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cd3d
130 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:25
Count of miRNA genes:23
Interacting mature miRNAs:25
Transcripts:ENSRNOT00000021488
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83910625891341052Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83975280384752803Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83910625891341052Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)85076395195763951Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83910625884106258Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)85158969999045312Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
5684993Bmd84Bone mineral density QTL 844.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)85158969958991895Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)84447792689477926Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83910625891341052Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)83776085958991895Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)84754141992541419Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)83546407171842899Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)83776085961459705Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83910625884106258Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)83154366176543661Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84961020468373388Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625884106258Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84444783789447837Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84961020494610204Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625867378345Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83910625891341052Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)84924517894245178Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)83412590255607752Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)85076395167219641Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)84924517894245178Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)84447504389475043Rat

Markers in Region
RH94582  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map8450.1UniSTS
Cytogenetic Map8q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 10 41 73 85 85 54 92 54 6 311 162 11 45 71 89 31 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000021488   ⟹   ENSRNOP00000021489
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl854,185,495 - 54,196,722 (+)Ensembl
mRatBN7.2 Ensembl845,288,749 - 45,301,809 (+)Ensembl
Rnor_6.0 Ensembl849,282,460 - 49,287,110 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000127768   ⟹   ENSRNOP00000101621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl854,175,155 - 54,191,275 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000155231   ⟹   ENSRNOP00000104456
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl854,186,393 - 54,191,275 (+)Ensembl
RefSeq Acc Id: NM_013169   ⟹   NP_037301
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8854,185,519 - 54,190,112 (+)NCBI
mRatBN7.2845,288,749 - 45,293,342 (+)NCBI
Rnor_6.0849,282,502 - 49,287,095 (+)NCBI
Rnor_5.0847,900,331 - 47,905,113 (+)NCBI
RGSC_v3.4847,932,151 - 47,936,744 (+)RGD
Celera844,873,511 - 44,878,104 (+)RGD
Sequence:
RefSeq Acc Id: XM_039080903   ⟹   XP_038936831
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8854,184,573 - 54,190,109 (+)NCBI
mRatBN7.2845,287,803 - 45,293,335 (+)NCBI
Protein Sequences
Protein RefSeqs NP_037301 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936831 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA37521 (Get FASTA)   NCBI Sequence Viewer  
  EDL95345 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000101621
GenBank Protein P19377 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037301   ⟸   NM_013169
- Peptide Label: precursor
- UniProtKB: P19377 (UniProtKB/Swiss-Prot),   A6J422 (UniProtKB/TrEMBL),   A0A8L2QB67 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000021489   ⟸   ENSRNOT00000021488
RefSeq Acc Id: XP_038936831   ⟸   XM_039080903
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000104456   ⟸   ENSRNOT00000155231
Ensembl Acc Id: ENSRNOP00000101621   ⟸   ENSRNOT00000127768
Protein Domains
CD3 gamma/delta subunit Ig-like   ITAM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P19377-F1-model_v2 AlphaFold P19377 1-173 view protein structure

Transcriptome

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

Promoters
RGD ID:13695907
Promoter ID:EPDNEW_R6432
Type:initiation region
Name:Cd3d_1
Description:CD3d molecule
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0849,282,502 - 49,282,562EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2304 AgrOrtholog
BioCyc Gene G2FUF-30689 BioCyc
Ensembl Genes ENSRNOG00000015994 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000127768 ENTREZGENE
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
  YojJ-like UniProtKB/Swiss-Prot
InterPro CD3_esu/gsu/dsu UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_4 UniProtKB/Swiss-Prot
  Phos_immunorcpt_sig_ITAM UniProtKB/Swiss-Prot
KEGG Report rno:25710 UniProtKB/Swiss-Prot
NCBI Gene 25710 ENTREZGENE
PANTHER PTHR10570 UniProtKB/Swiss-Prot
  PTHR10570:SF5 UniProtKB/Swiss-Prot
Pfam Ig_4 UniProtKB/Swiss-Prot
  ITAM UniProtKB/Swiss-Prot
PhenoGen Cd3d PhenoGen
PROSITE ITAM_1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000015994 RatGTEx
SMART ITAM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
TIGR TC223607
UniProt A0A8L2QB67 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L9C1_RAT UniProtKB/TrEMBL
  A0ABK0LHY6_RAT UniProtKB/TrEMBL
  A6J422 ENTREZGENE, UniProtKB/TrEMBL
  CD3D_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-14 Cd3d  CD3 delta subunit of T-cell receptor complex  Cd3d  CD3d molecule  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-02 Cd3d  CD3d molecule  Cd3d  CD3 molecule, delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd3d  CD3 molecule delta polypeptide  Cd3d  CD3 antigen delta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cd3d  CD3 antigen delta polypeptide      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function human homolog is a component of the antigen receptor on T cells 634716