Cd47 (Cd47 molecule) - Rat Genome Database

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Gene: Cd47 (Cd47 molecule) Rattus norvegicus
Analyze
Symbol: Cd47
Name: Cd47 molecule
RGD ID: 2308
Description: Enables protein binding activity involved in heterotypic cell-cell adhesion. Involved in several processes, including cellular response to cytokine stimulus; positive regulation of monocyte extravasation; and regulation of phagocytosis. Located in cell surface. Orthologous to human CD47 (CD47 molecule); PARTICIPATES IN cell-extracellular matrix signaling pathway; INTERACTS WITH (+)-schisandrin B; 1,2,4-trimethylbenzene; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD47 antigen (Rh-related antigen, integrin-associated signal transducer); IAP; integrin-associated protein; Itgp; leukocyte surface antigen CD47; MGC93490
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81164,374,816 - 64,438,763 (-)NCBIGRCr8
mRatBN7.21150,906,052 - 50,970,000 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1150,906,177 - 50,969,425 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1159,678,059 - 59,738,347 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01152,339,783 - 52,400,067 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01151,467,423 - 51,527,814 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01153,511,485 - 53,575,754 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1153,514,595 - 53,575,175 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01156,677,247 - 56,739,505 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41152,098,355 - 52,158,169 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11152,155,955 - 52,215,758 (-)NCBI
Celera1150,551,511 - 50,611,556 (-)NCBICelera
Cytogenetic Map11q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxynon-2-enal  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetazolamide  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
beauvericin  (ISO)
benzene  (EXP)
benzo[a]pyrene  (EXP,ISO)
beta-naphthoflavone  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
cannabidiol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (EXP)
chrysene  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (EXP)
disodium selenite  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enniatin  (ISO)
ethanol  (ISO)
fenthion  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gamma-hexachlorocyclohexane  (EXP)
hypochlorous acid  (ISO)
irinotecan  (ISO)
iron(III) nitrilotriacetate  (EXP)
ivermectin  (ISO)
ketoconazole  (ISO)
lead diacetate  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (EXP)
methylparaben  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nitrofen  (EXP)
nonanoic acid  (ISO)
NSC 23766  (ISO)
ozone  (EXP,ISO)
p-toluidine  (EXP)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
parathion  (ISO)
pentachlorophenol  (ISO)
phenobarbital  (EXP)
phenytoin  (EXP)
pirinixic acid  (EXP)
propanal  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
senecionine  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
torcetrapib  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
Triptolide  (EXP)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Signal regulatory protein alpha ligation induces macrophage nitric oxide production through JAK/STAT- and phosphatidylinositol 3-kinase/Rac1/NAPDH oxidase/H2O2-dependent pathways. Alblas J, etal., Mol Cell Biol. 2005 Aug;25(16):7181-92. doi: 10.1128/MCB.25.16.7181-7192.2005.
2. Signal-regulatory protein alpha-CD47 interactions are required for the transmigration of monocytes across cerebral endothelium. de Vries HE, etal., J Immunol 2002 Jun 1;168(11):5832-9.
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. Myelin down-regulates myelin phagocytosis by microglia and macrophages through interactions between CD47 on myelin and SIRPa (signal regulatory protein-a) on phagocytes. Gitik M, etal., J Neuroinflammation. 2011 Mar 15;8:24. doi: 10.1186/1742-2094-8-24.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Amyloid-beta-induced astrocytic phagocytosis is mediated by CD36, CD47 and RAGE. Jones RS, etal., J Neuroimmune Pharmacol. 2013 Mar;8(1):301-11. doi: 10.1007/s11481-012-9427-3. Epub 2012 Dec 14.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Overexpression of integrin-associated protein (CD47) in rat kidney treated with a renal carcinogen, ferric nitrilotriacetate. Nishiyama Y, etal., Jpn J Cancer Res 1997 Feb;88(2):120-8.
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:9592107   PMID:10816079   PMID:11509594   PMID:12477932   PMID:14634079   PMID:15297459   PMID:15383453   PMID:15489334   PMID:15700281   PMID:19205621   PMID:19505377   PMID:19724054  
PMID:20554646   PMID:22193512   PMID:22215724   PMID:22871113   PMID:23087362   PMID:23376485   PMID:23472187   PMID:23799952   PMID:23990210   PMID:25482981   PMID:25706387   PMID:26617765  
PMID:27960187   PMID:28228282   PMID:29476059   PMID:30720765   PMID:31059044   PMID:31377653   PMID:33945877   PMID:36528876   PMID:38279488  


Genomics

Comparative Map Data
Cd47
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81164,374,816 - 64,438,763 (-)NCBIGRCr8
mRatBN7.21150,906,052 - 50,970,000 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1150,906,177 - 50,969,425 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1159,678,059 - 59,738,347 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01152,339,783 - 52,400,067 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01151,467,423 - 51,527,814 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01153,511,485 - 53,575,754 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1153,514,595 - 53,575,175 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01156,677,247 - 56,739,505 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41152,098,355 - 52,158,169 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11152,155,955 - 52,215,758 (-)NCBI
Celera1150,551,511 - 50,611,556 (-)NCBICelera
Cytogenetic Map11q21NCBI
CD47
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383108,043,091 - 108,091,031 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3108,043,091 - 108,091,862 (-)EnsemblGRCh38hg38GRCh38
GRCh373107,761,938 - 107,809,878 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363109,244,631 - 109,292,625 (-)NCBINCBI36Build 36hg18NCBI36
Build 343109,244,836 - 109,292,592NCBI
Celera3106,158,598 - 106,206,555 (-)NCBICelera
Cytogenetic Map3q13.12NCBI
HuRef3105,135,236 - 105,183,196 (-)NCBIHuRef
CHM1_13107,726,104 - 107,774,070 (-)NCBICHM1_1
T2T-CHM13v2.03110,762,913 - 110,810,821 (-)NCBIT2T-CHM13v2.0
Cd47
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391649,671,691 - 49,732,799 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1649,620,896 - 49,735,373 (+)EnsemblGRCm39 Ensembl
GRCm381649,851,328 - 49,912,503 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1649,800,533 - 49,915,010 (+)EnsemblGRCm38mm10GRCm38
MGSCv371649,855,767 - 49,911,801 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361649,775,280 - 49,831,314 (+)NCBIMGSCv36mm8
Celera1650,198,659 - 50,254,756 (+)NCBICelera
Cytogenetic Map16B5NCBI
cM Map1631.23NCBI
Cd47
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554278,704,519 - 8,740,962 (-)NCBIChiLan1.0ChiLan1.0
CD47
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22106,021,081 - 106,069,020 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13106,025,859 - 106,073,254 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03105,170,246 - 105,217,603 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13112,104,037 - 112,140,818 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3112,104,037 - 112,143,522 (-)Ensemblpanpan1.1panPan2
CD47
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13313,315,984 - 13,362,971 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3313,319,266 - 13,363,580 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3313,425,087 - 13,468,588 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03313,485,123 - 13,528,697 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3313,481,404 - 13,528,744 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13313,354,729 - 13,398,227 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03313,420,284 - 13,463,780 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03313,832,991 - 13,876,700 (-)NCBIUU_Cfam_GSD_1.0
LOC101967799
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602141,436,987 - 141,483,915 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366451,363,406 - 1,408,624 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD47
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13151,429,288 - 151,488,544 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113151,427,933 - 151,488,064 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213160,472,681 - 160,518,106 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CD47
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12272,702,236 - 72,749,344 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2272,702,324 - 72,751,887 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604193,741,579 - 93,790,134 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cd47
421 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:52
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000050142
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111945620576331918Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat

Markers in Region
AI071341  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21150,968,148 - 50,968,366 (+)MAPPERmRatBN7.2
Rnor_6.01153,573,899 - 53,574,116NCBIRnor6.0
Rnor_5.01156,737,649 - 56,737,866UniSTSRnor5.0
RGSC_v3.41152,156,893 - 52,157,110UniSTSRGSC3.4
Celera1150,610,280 - 50,610,497UniSTS
Cytogenetic Map11q21UniSTS
AB012693  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21150,909,961 - 50,910,063 (+)MAPPERmRatBN7.2
Rnor_6.01153,515,395 - 53,515,496NCBIRnor6.0
Rnor_5.01156,680,537 - 56,680,638UniSTSRnor5.0
RGSC_v3.41152,099,170 - 52,099,271UniSTSRGSC3.4
Celera1150,552,326 - 50,552,427UniSTS
Cytogenetic Map11q21UniSTS
AW108519  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21150,909,339 - 50,909,466 (+)MAPPERmRatBN7.2
Rnor_6.01153,514,773 - 53,514,899NCBIRnor6.0
Rnor_5.01156,679,915 - 56,680,041UniSTSRnor5.0
RGSC_v3.41152,098,548 - 52,098,674UniSTSRGSC3.4
Celera1150,551,704 - 50,551,830UniSTS
Cytogenetic Map11q21UniSTS
Z25524  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21150,909,257 - 50,909,458 (+)MAPPERmRatBN7.2
Rnor_6.01153,514,691 - 53,514,891NCBIRnor6.0
Rnor_5.01156,679,833 - 56,680,033UniSTSRnor5.0
RGSC_v3.41152,098,466 - 52,098,666UniSTSRGSC3.4
Celera1150,551,622 - 50,551,822UniSTS
Cytogenetic Map11q21UniSTS
RH138892  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21150,914,483 - 50,914,603 (+)MAPPERmRatBN7.2
Rnor_6.01153,519,908 - 53,520,027NCBIRnor6.0
Rnor_5.01156,685,050 - 56,685,169UniSTSRnor5.0
RGSC_v3.41152,103,692 - 52,103,811UniSTSRGSC3.4
Celera1150,556,848 - 50,556,967UniSTS
Cytogenetic Map11q21UniSTS


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_019195 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006248268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063270440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001840415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_358250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF017437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC085740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473967 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D87659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000050142   ⟹   ENSRNOP00000050938
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1150,909,841 - 50,969,388 (-)Ensembl
Rnor_6.0 Ensembl1153,518,726 - 53,575,060 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078221   ⟹   ENSRNOP00000068714
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1150,909,850 - 50,969,425 (-)Ensembl
Rnor_6.0 Ensembl1153,515,343 - 53,575,161 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078434   ⟹   ENSRNOP00000071430
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1150,909,847 - 50,969,409 (-)Ensembl
Rnor_6.0 Ensembl1153,514,595 - 53,575,175 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098840   ⟹   ENSRNOP00000082971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1150,906,177 - 50,969,385 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099732   ⟹   ENSRNOP00000097243
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1150,906,177 - 50,958,470 (-)Ensembl
RefSeq Acc Id: NM_019195   ⟹   NP_062068
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,377,911 - 64,438,188 (-)NCBI
mRatBN7.21150,909,147 - 50,969,425 (-)NCBI
Rnor_6.01153,514,580 - 53,575,175 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
RGSC_v3.41152,098,355 - 52,158,169 (-)RGD
Celera1150,551,511 - 50,611,556 (-)RGD
Sequence:
RefSeq Acc Id: XM_006248262   ⟹   XP_006248324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
mRatBN7.21150,909,843 - 50,970,000 (-)NCBI
Rnor_6.01153,511,485 - 53,575,754 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248263   ⟹   XP_006248325
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
mRatBN7.21150,909,843 - 50,970,000 (-)NCBI
Rnor_6.01153,511,485 - 53,575,754 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248264   ⟹   XP_006248326
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
mRatBN7.21150,906,052 - 50,970,000 (-)NCBI
Rnor_6.01153,511,485 - 53,575,754 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248266   ⟹   XP_006248328
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
mRatBN7.21150,909,843 - 50,970,000 (-)NCBI
Rnor_6.01153,511,485 - 53,575,754 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248267   ⟹   XP_006248329
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
mRatBN7.21150,909,843 - 50,970,000 (-)NCBI
Rnor_6.01153,511,485 - 53,575,754 (-)NCBI
Rnor_5.01156,677,247 - 56,739,505 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063270439   ⟹   XP_063126509
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
RefSeq Acc Id: XM_063270440   ⟹   XP_063126510
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
RefSeq Acc Id: XR_010055945
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
RefSeq Acc Id: XR_010055946
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81164,374,816 - 64,438,763 (-)NCBI
RefSeq Acc Id: NP_062068   ⟸   NM_019195
- Peptide Label: precursor
- UniProtKB: O35294 (UniProtKB/Swiss-Prot),   P97829 (UniProtKB/Swiss-Prot),   A6IQT9 (UniProtKB/TrEMBL),   A0A8I6AR93 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248329   ⟸   XM_006248267
- Peptide Label: isoform X6
- UniProtKB: A0A0G2JTH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248326   ⟸   XM_006248264
- Peptide Label: isoform X3
- UniProtKB: A0A0G2JTH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248325   ⟸   XM_006248263
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JTH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248324   ⟸   XM_006248262
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JTH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248328   ⟸   XM_006248266
- Peptide Label: isoform X5
- UniProtKB: A6IQU0 (UniProtKB/TrEMBL),   A0A0G2JTH4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071430   ⟸   ENSRNOT00000078434
Ensembl Acc Id: ENSRNOP00000068714   ⟸   ENSRNOT00000078221
Ensembl Acc Id: ENSRNOP00000050938   ⟸   ENSRNOT00000050142
Ensembl Acc Id: ENSRNOP00000097243   ⟸   ENSRNOT00000099732
Ensembl Acc Id: ENSRNOP00000082971   ⟸   ENSRNOT00000098840
RefSeq Acc Id: XP_063126510   ⟸   XM_063270440
- Peptide Label: isoform X7
- UniProtKB: A0A8L2QRJ3 (UniProtKB/TrEMBL),   A6IQU2 (UniProtKB/TrEMBL),   A0A8I6AR93 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126509   ⟸   XM_063270439
- Peptide Label: isoform X4
- UniProtKB: A0A0G2JTH4 (UniProtKB/TrEMBL)
Protein Domains
CD47 immunoglobulin-like   CD47-like transmembrane   Ig-like   Ig-like V-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97829-F1-model_v2 AlphaFold P97829 1-303 view protein structure

Transcriptome

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

Promoters
RGD ID:13698121
Promoter ID:EPDNEW_R8646
Type:initiation region
Name:Cd47_1
Description:Cd47 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_6.01153,575,178 - 53,575,238EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2308 AgrOrtholog
BioCyc Gene G2FUF-21435 BioCyc
Ensembl Genes ENSRNOG00000001964 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050142.6 UniProtKB/TrEMBL
  ENSRNOT00000078221.2 UniProtKB/TrEMBL
  ENSRNOT00000078434.2 UniProtKB/TrEMBL
  ENSRNOT00000098840.1 UniProtKB/TrEMBL
  ENSRNOT00000099732.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7189894 IMAGE-MGC_LOAD
InterPro CD47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD47_TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD47_Vset UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IgV_CD47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29364 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93490 IMAGE-MGC_LOAD
NCBI Gene 29364 ENTREZGENE
PANTHER LEUKOCYTE SURFACE ANTIGEN CD47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10613 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CD47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V-set_CD47 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd47 PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001964 RatGTEx
TIGR TC217664
UniProt A0A0G2JTH4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AR93 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G871_RAT UniProtKB/TrEMBL
  A0A8L2QRJ3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2R5X3_RAT UniProtKB/TrEMBL
  A6IQT9 ENTREZGENE, UniProtKB/TrEMBL
  A6IQU0 ENTREZGENE, UniProtKB/TrEMBL
  A6IQU1_RAT UniProtKB/TrEMBL
  A6IQU2 ENTREZGENE, UniProtKB/TrEMBL
  A6IQU3_RAT UniProtKB/TrEMBL
  CD47_RAT UniProtKB/Swiss-Prot
  O35294 ENTREZGENE
  P97829 ENTREZGENE
UniProt Secondary O35294 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-29 Cd47  Cd47 molecule  Cd47  CD47 antigen (Rh-related antigen, integrin-associated signal transducer)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cd47  CD47 antigen (Rh-related antigen, integrin-associated signal transducer)    integrin-associated protein  Name updated 1299863 APPROVED
2002-06-10 Cd47  integrin-associated protein      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in renal cells 69802
gene_mutations_overexpression overexpression may be associated with Fe-NTA-induced renal cortical tubular damage and with tumor progression and metastasis 69802
gene_process may be involved in regulating renal cell growth 69802