Cd7 (Cd7 molecule) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cd7 (Cd7 molecule) Rattus norvegicus
Analyze
Symbol: Cd7
Name: Cd7 molecule
RGD ID: 1310015
Description: Predicted to enable signaling receptor activity. Predicted to be involved in adaptive immune response. Predicted to act upstream of or within homeostasis of number of cells within a tissue. Orthologous to human CD7 (CD7 molecule); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD7 antigen; LOC303747; T-cell antigen CD7
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
mRatBN7.210106,304,046 - 106,306,963 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,304,056 - 106,306,967 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,408,009 - 111,410,884 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.010110,871,055 - 110,873,930 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.010106,224,502 - 106,227,383 (-)NCBIRnor_WKY
Rnor_6.010110,229,931 - 110,232,812 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,229,922 - 110,232,843 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010109,817,145 - 109,820,026 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,250,174 - 110,253,055 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,264,677 - 110,267,530 (-)NCBI
Celera10104,842,923 - 104,845,804 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9637484   PMID:12477932   PMID:23376485  


Genomics

Comparative Map Data
Cd7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.210106,304,046 - 106,306,963 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10106,304,056 - 106,306,967 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10111,408,009 - 111,410,884 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.010110,871,055 - 110,873,930 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.010106,224,502 - 106,227,383 (-)NCBIRnor_WKY
Rnor_6.010110,229,931 - 110,232,812 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10110,229,922 - 110,232,843 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010109,817,145 - 109,820,026 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410110,250,174 - 110,253,055 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110110,264,677 - 110,267,530 (-)NCBI
Celera10104,842,923 - 104,845,804 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
CD7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381782,314,873 - 82,317,608 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1782,314,868 - 82,317,608 (-)EnsemblGRCh38hg38GRCh38
GRCh371780,272,749 - 80,275,484 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361777,866,035 - 77,868,769 (-)NCBINCBI36Build 36hg18NCBI36
Build 341777,866,034 - 77,868,741NCBI
Celera1776,866,247 - 76,868,981 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1775,671,526 - 75,674,260 (-)NCBIHuRef
CHM1_11780,358,937 - 80,361,671 (-)NCBICHM1_1
T2T-CHM13v2.01783,183,628 - 83,186,371 (-)NCBIT2T-CHM13v2.0
Cd7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911120,927,573 - 120,930,304 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11120,927,573 - 120,930,244 (-)EnsemblGRCm39 Ensembl
GRCm3811121,036,747 - 121,039,478 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11121,036,747 - 121,039,418 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711120,898,065 - 120,900,732 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611120,852,841 - 120,855,508 (-)NCBIMGSCv36mm8
Celera11132,774,570 - 132,777,237 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1184.85NCBI
Cd7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955506863,188 - 865,857 (+)NCBIChiLan1.0ChiLan1.0
CD7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11782,535,101 - 82,537,956 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1782,535,558 - 82,537,847 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01776,724,313 - 76,727,998 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CD7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1945,826 - 48,864 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl945,634 - 48,749 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha9647,579 - 650,430 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.09638,953 - 641,804 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl9638,289 - 641,689 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.19633,434 - 636,285 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.09793,930 - 796,781 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.09869,018 - 871,869 (+)NCBIUU_Cfam_GSD_1.0
Cd7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602632,473 - 634,782 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365945,777,361 - 5,783,533 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.112740,345 - 744,876 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103243765
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11674,234,604 - 74,237,479 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1674,234,611 - 74,237,424 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607745,874,429 - 45,877,444 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480111,108,032 - 11,112,345 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cd7
18 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:223
Count of miRNA genes:156
Interacting mature miRNAs:174
Transcripts:ENSRNOT00000054934
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 (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
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072224939107211142Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1072224939107211142Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1076246085107211142Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076452683107211142Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1076748906107211142Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1081285008107211142Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1082685200107211142Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087055121107211142Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087307617107211142Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1088539139107211142Rat
12880395Cm109Cardiac mass QTL 1090.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1090404397107211142Rat
12880396Am13Aortic mass QTL 130.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1090404397107211142Rat
12880398Kidm67Kidney mass QTL 670.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1090404397107211142Rat
12880384Cm107Cardiac mass QTL 1070.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)90404397107211142Rat
12880385Cm108Cardiac mass QTL 1080.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)90404397107211142Rat
1579915Bp280Blood pressure QTL 2800.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090404397107211142Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1090627439107057807Rat
724530Bp149Blood pressure QTL 1490.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090627439107211142Rat
1558652Bw57Body weight QTL 574.20.0008body mass (VT:0001259)body weight (CMO:0000012)1090910316107211142Rat
1354641Bvd2Brain ventricular dilatation QTL 26.360.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)1093223816107057807Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1094759759107211142Rat
1578663Bss18Bone structure and strength QTL 183.6femur width (VT:1000666)femoral neck width (CMO:0001695)1096703043107057807Rat
1578672Bmd16Bone mineral density QTL 166.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)1096703043107057807Rat


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 3 1 8 19 3 1
Low 15 40 35 35 1 2 9 29 24 10 1
Below cutoff 11 9 6 6 7 9 30 6 13 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000054934   ⟹   ENSRNOP00000051817
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10106,304,056 - 106,306,967 (-)Ensembl
Rnor_6.0 Ensembl10110,229,922 - 110,232,843 (-)Ensembl
RefSeq Acc Id: NM_001107074   ⟹   NP_001100544
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210106,304,046 - 106,306,927 (-)NCBI
Rnor_6.010110,229,931 - 110,232,812 (-)NCBI
Rnor_5.010109,817,145 - 109,820,026 (-)NCBI
RGSC_v3.410110,250,174 - 110,253,055 (-)RGD
Celera10104,842,923 - 104,845,804 (-)RGD
Sequence:
RefSeq Acc Id: XM_039086226   ⟹   XP_038942154
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210106,304,046 - 106,306,963 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001100544 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942154 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI67030 (Get FASTA)   NCBI Sequence Viewer  
  EDM06925 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100544   ⟸   NM_001107074
- Peptide Label: precursor
- UniProtKB: B2RZ54 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051817   ⟸   ENSRNOT00000054934
RefSeq Acc Id: XP_038942154   ⟸   XM_039086226
- Peptide Label: isoform X1
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RZ54-F1-model_v2 AlphaFold B2RZ54 1-209 view protein structure

Transcriptome

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

Promoters
RGD ID:13697985
Promoter ID:EPDNEW_R8509
Type:initiation region
Name:Cd7_1
Description:Cd7 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_6.010110,232,826 - 110,232,886EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310015 AgrOrtholog
BioCyc Gene G2FUF-22375 BioCyc
Ensembl Genes ENSRNOG00000036674 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000051817 ENTREZGENE
  ENSRNOP00000051817.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000054934 ENTREZGENE
  ENSRNOT00000054934.5 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7378211 IMAGE-MGC_LOAD
InterPro CD7 UniProtKB/TrEMBL
  Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
KEGG Report rno:303747 UniProtKB/TrEMBL
MGC_CLONE MGC:189271 IMAGE-MGC_LOAD
NCBI Gene 303747 ENTREZGENE
PANTHER PTHR15343 UniProtKB/TrEMBL
Pfam V-set UniProtKB/TrEMBL
PhenoGen Cd7 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
SMART SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt B2RZ54 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-29 Cd7  Cd7 molecule  Cd7  CD7 antigen   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cd7  CD7 antigen   Cd7_predicted  CD7 antigen (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cd7_predicted  CD7 antigen (predicted)      Symbol and Name status set to approved 70820 APPROVED