Cd9 (CD9 molecule) - Rat Genome Database

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Gene: Cd9 (CD9 molecule) Rattus norvegicus
Analyze
Symbol: Cd9
Name: CD9 molecule
RGD ID: 2318
Description: Enables integrin binding activity. Involved in oligodendrocyte development. Located in apical plasma membrane; cell surface; and extracellular exosome. Human ortholog(s) of this gene implicated in prostate adenocarcinoma. Orthologous to human CD9 (CD9 molecule); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CD9 antigen; CD9 antigen (p24)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,942,553 - 159,975,463 (-)NCBIGRCr8
mRatBN7.24158,256,328 - 158,289,136 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4158,256,328 - 158,289,222 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,492,776 - 164,525,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04160,275,706 - 160,308,420 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,908,861 - 158,941,566 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,977,163 - 158,010,091 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,977,162 - 158,010,166 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,989,635 - 225,022,563 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44162,279,462 - 162,312,889 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14162,524,803 - 162,557,764 (-)NCBI
Celera4146,991,146 - 147,023,948 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-bromohexadecanoic acid  (ISO)
2-palmitoylglycerol  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
acetamide  (EXP)
acetic acid  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
alpha-naphthoflavone  (EXP)
alpha-pinene  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
belinostat  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bicalutamide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
butan-1-ol  (ISO)
butyric acid  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calyculin a  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
DDE  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
diclofenac  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP,ISO)
disulfiram  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
fumonisin B1  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
glyphosate  (EXP)
hexachlorobenzene  (EXP)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
inulin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
menadione  (ISO)
mercury dibromide  (ISO)
Mesaconitine  (EXP)
methimazole  (EXP)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
morphine  (EXP)
Muraglitazar  (EXP)
N-acetyl-1,4-benzoquinone imine  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP)
nicotine  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
ozone  (EXP,ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
protein kinase inhibitor  (ISO)
pyrethrins  (EXP)
quercetin  (ISO)
rotenone  (ISO)
sarin  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
triadimefon  (EXP,ISO)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
troglitazone  (EXP)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
integrin binding  (IEA,IPI,ISO)
protein binding  (IPI,ISO)

References

References - curated
# Reference Title Reference Citation
1. Expression of KAI1/CD82 and MRP-1/CD9 in transitional cell carcinoma of bladder. Ai X, etal., J Huazhong Univ Sci Technolog Med Sci. 2007 Feb;27(1):79-82.
2. Tetraspanin CD81 is required for the alpha v beta5-integrin-dependent particle-binding step of RPE phagocytosis. Chang Y and Finnemann SC, J Cell Sci. 2007 Sep 1;120(Pt 17):3053-63. Epub 2007 Aug 7.
3. The major CD9 and CD81 molecular partner. Identification and characterization of the complexes. Charrin S, etal., J Biol Chem. 2001 Apr 27;276(17):14329-37. Epub 2001 Jan 18.
4. Characterization of rat NCA/CD9 cell surface antigen and its expression by normal and malignant neural cells. Deissler H, etal., J Neurosci Res. 1996 Mar 15;43(6):664-74.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Loss of expression and altered localization of KAI1 and CD9 protein are associated with epithelial ovarian cancer progression. Houle CD, etal., Gynecol Oncol. 2002 Jul;86(1):69-78.
8. CD9, a major platelet cell surface glycoprotein, is a ROCA antigen and is expressed in the nervous system. Kaprielian Z, etal., J Neurosci 1995 Jan;15(1 Pt 2):562-73.
9. 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.
10. Severely reduced female fertility in CD9-deficient mice. Le Naour F, etal., Science 2000 Jan 14;287(5451):319-21.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Motility-related protein 1 (MRP-1/CD9) expression in urothelial bladder carcinoma and its relation to tumor recurrence and progression. Mhawech P, etal., Cancer. 2003 Oct 15;98(8):1649-57.
13. Identification of molecular markers for metastasis-related genes in primary breast cancer cells. Mimori K, etal., Clin Exp Metastasis. 2005;22(1):59-67.
14. Loss of motility-related protein 1 (MRP1/CD9) and integrin alpha3 expression in endometrial cancers. Miyamoto S, etal., Cancer. 2001 Aug 1;92(3):542-8.
15. Cell surface tetraspanin Tspan8 contributes to molecular pathways of exosome-induced endothelial cell activation. Nazarenko I, etal., Cancer Res. 2010 Feb 15;70(4):1668-78. doi: 10.1158/0008-5472.CAN-09-2470. Epub 2010 Feb 2.
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. GOA pipeline RGD automated data pipeline
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. Progression of cervical carcinomas is associated with down-regulation of CD9 but strong local re-expression at sites of transendothelial invasion. Sauer G, etal., Clin Cancer Res. 2003 Dec 15;9(17):6426-31.
20. Osmotically relevant membrane signaling complex: association between HB-EGF, beta(1)-integrin, and CD9 in mTAL. Sheikh-Hamad D, etal., Am J Physiol Cell Physiol. 2000 Jul;279(1):C136-46.
21. The tetraspanin protein, CD9, is expressed by progenitor cells committed to oligodendrogenesis and is linked to beta1 integrin, CD81, and Tspan-2. Terada N, etal., Glia. 2002 Dec;40(3):350-9.
22. Down-regulation of CD9 expression during prostate carcinoma progression is associated with CD9 mRNA modifications. Wang JC, etal., Clin Cancer Res. 2007 Apr 15;13(8):2354-61. Epub 2007 Apr 3.
23. Exosomes secreted from GATA-4 overexpressing mesenchymal stem cells serve as a reservoir of anti-apoptotic microRNAs for cardioprotection. Yu B, etal., Int J Cardiol. 2015 Mar 1;182:349-60. doi: 10.1016/j.ijcard.2014.12.043. Epub 2014 Dec 23.
Additional References at PubMed
PMID:7511626   PMID:7650394   PMID:8478605   PMID:8889548   PMID:10634791   PMID:10700183   PMID:12060780   PMID:12477932   PMID:12796480   PMID:12947022   PMID:14575715   PMID:14715942  
PMID:15199151   PMID:15326289   PMID:15344881   PMID:15908444   PMID:16502470   PMID:16557522   PMID:18541721   PMID:18662991   PMID:19056867   PMID:19199708   PMID:21423176   PMID:21690351  
PMID:23376485   PMID:23395392   PMID:23443658   PMID:23533145   PMID:23575678   PMID:23885211   PMID:24205035   PMID:24769233   PMID:26224160   PMID:27993971   PMID:29476059   PMID:32830152  
PMID:34185148   PMID:37778977  


Genomics

Comparative Map Data
Cd9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,942,553 - 159,975,463 (-)NCBIGRCr8
mRatBN7.24158,256,328 - 158,289,136 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4158,256,328 - 158,289,222 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,492,776 - 164,525,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04160,275,706 - 160,308,420 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,908,861 - 158,941,566 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,977,163 - 158,010,091 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,977,162 - 158,010,166 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,989,635 - 225,022,563 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44162,279,462 - 162,312,889 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14162,524,803 - 162,557,764 (-)NCBI
Celera4146,991,146 - 147,023,948 (-)NCBICelera
Cytogenetic Map4q42NCBI
CD9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,199,946 - 6,238,266 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,199,715 - 6,238,271 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,309,112 - 6,347,432 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,179,816 - 6,217,688 (+)NCBINCBI36Build 36hg18NCBI36
Build 34126,179,815 - 6,217,688NCBI
Celera127,925,577 - 7,963,448 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef126,161,749 - 6,199,703 (+)NCBIHuRef
CHM1_1126,308,757 - 6,346,716 (+)NCBICHM1_1
T2T-CHM13v2.0126,207,556 - 6,245,881 (+)NCBIT2T-CHM13v2.0
Cd9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396125,437,229 - 125,471,723 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6125,437,229 - 125,471,754 (-)EnsemblGRCm39 Ensembl
GRCm386125,460,266 - 125,494,760 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6125,460,266 - 125,494,791 (-)EnsemblGRCm38mm10GRCm38
MGSCv376125,410,284 - 125,444,773 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366125,425,885 - 125,460,374 (-)NCBIMGSCv36mm8
Celera6127,119,283 - 127,154,258 (-)NCBICelera
Cytogenetic Map6F3NCBI
cM Map659.32NCBI
Cd9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554133,891,874 - 3,928,119 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554133,891,874 - 3,924,065 (+)NCBIChiLan1.0ChiLan1.0
CD9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21011,757,890 - 11,796,638 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11211,752,117 - 11,793,395 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0126,327,783 - 6,366,083 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,245,351 - 6,283,385 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,245,348 - 6,283,385 (+)Ensemblpanpan1.1panPan2
CD9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12738,742,539 - 38,754,984 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2738,742,963 - 38,774,576 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha277,839,518 - 7,871,440 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02739,099,216 - 39,131,465 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2739,099,221 - 39,131,485 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12738,970,947 - 39,002,367 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02739,012,475 - 39,043,831 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0277,318,116 - 7,350,275 (+)NCBIUU_Cfam_GSD_1.0
Cd9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945102,830,012 - 102,862,577 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049367091,497,504 - 1,530,114 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl564,420,182 - 64,460,304 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1564,420,177 - 64,459,783 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2566,879,690 - 66,919,302 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap5q25NCBI
CD9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1116,236,449 - 6,275,904 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl116,236,494 - 6,275,909 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660631,962,866 - 1,999,271 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248603,027,029 - 3,056,798 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248603,027,126 - 3,055,974 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cd9
188 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:23
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000026633
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
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
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
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
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
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
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
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
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
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
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4157680158158841762Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
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
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
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
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
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

Markers in Region
D4Got131  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,260,855 - 158,261,065 (+)MAPPERmRatBN7.2
Rnor_6.04157,981,691 - 157,981,900NCBIRnor6.0
Rnor_5.04224,994,163 - 224,994,372UniSTSRnor5.0
RGSC_v3.44162,283,989 - 162,284,199RGDRGSC3.4
RGSC_v3.44162,283,990 - 162,284,199UniSTSRGSC3.4
RGSC_v3.14162,528,926 - 162,529,135RGD
Celera4146,995,674 - 146,995,881UniSTS
RH 3.4 Map41005.5RGD
RH 3.4 Map41005.5UniSTS
Cytogenetic Map4q42UniSTS
RH139130  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,258,995 - 158,259,124 (+)MAPPERmRatBN7.2
Rnor_6.04157,979,831 - 157,979,959NCBIRnor6.0
Rnor_5.04224,992,303 - 224,992,431UniSTSRnor5.0
RGSC_v3.44162,282,130 - 162,282,258UniSTSRGSC3.4
Celera4146,993,814 - 146,993,942UniSTS
RH 3.4 Map41009.1UniSTS
Cytogenetic Map4q42UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC161804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG670145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ202980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF111078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219799 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229409 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC162232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC162233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X76489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000026633   ⟹   ENSRNOP00000026633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4158,256,335 - 158,289,222 (-)Ensembl
Rnor_6.0 Ensembl4157,977,162 - 158,010,166 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097226   ⟹   ENSRNOP00000084675
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4158,256,328 - 158,289,222 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102545   ⟹   ENSRNOP00000095011
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4158,256,329 - 158,289,222 (-)Ensembl
RefSeq Acc Id: NM_053018   ⟹   NP_444177
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,942,553 - 159,975,358 (-)NCBI
mRatBN7.24158,256,328 - 158,289,136 (-)NCBI
Rnor_6.04157,977,163 - 158,010,091 (-)NCBI
Rnor_5.04224,989,635 - 225,022,563 (-)NCBI
RGSC_v3.44162,279,462 - 162,312,889 (-)RGD
Celera4146,991,146 - 147,023,948 (-)RGD
Sequence:
RefSeq Acc Id: XM_063285570   ⟹   XP_063141640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,942,556 - 159,975,463 (-)NCBI
RefSeq Acc Id: NP_444177   ⟸   NM_053018
- UniProtKB: P40241 (UniProtKB/Swiss-Prot),   B1WBM0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000026633   ⟸   ENSRNOT00000026633
Ensembl Acc Id: ENSRNOP00000084675   ⟸   ENSRNOT00000097226
Ensembl Acc Id: ENSRNOP00000095011   ⟸   ENSRNOT00000102545
RefSeq Acc Id: XP_063141640   ⟸   XM_063285570
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZZU3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P40241-F1-model_v2 AlphaFold P40241 1-226 view protein structure

Transcriptome

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

Promoters
RGD ID:13693413
Promoter ID:EPDNEW_R3938
Type:initiation region
Name:Cd9_1
Description:CD9 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_6.04158,010,115 - 158,010,175EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2318 AgrOrtholog
BioCyc Gene G2FUF-42985 BioCyc
Ensembl Genes ENSRNOG00000019556 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055010243 UniProtKB/Swiss-Prot
  ENSRNOG00060023442 UniProtKB/Swiss-Prot
  ENSRNOG00065033344 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000026633.8 UniProtKB/Swiss-Prot
  ENSRNOT00000097226.1 UniProtKB/TrEMBL
  ENSRNOT00000102545.1 UniProtKB/TrEMBL
  ENSRNOT00055017304 UniProtKB/Swiss-Prot
  ENSRNOT00060040626 UniProtKB/Swiss-Prot
  ENSRNOT00065057319 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.1450.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9101765 IMAGE-MGC_LOAD
InterPro CD9_LEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin/Peripherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tetraspanin_EC2_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24936 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:187212 IMAGE-MGC_LOAD
NCBI Gene 24936 ENTREZGENE
PANTHER CD9 ANTIGEN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR19282 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd9 PhenoGen
PIRSF Tetraspanin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS TMFOUR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TM4_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019556 RatGTEx
  ENSRNOG00055010243 RatGTEx
  ENSRNOG00060023442 RatGTEx
  ENSRNOG00065033344 RatGTEx
Superfamily-SCOP SSF48652 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZZU3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ALV0_RAT UniProtKB/TrEMBL
  B1WBM0 ENTREZGENE, UniProtKB/TrEMBL
  CD9_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-26 Cd9  CD9 molecule  Cd9  CD9 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cd9  CD9 antigen (p24)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression ubiquitously expressed; enriched in neural tissues 724648
gene_protein 26 kDa 724648