Cd38 (CD38 molecule) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cd38 (CD38 molecule) Rattus norvegicus
Analyze
Symbol: Cd38
Name: CD38 molecule
RGD ID: 2303
Description: Exhibits NAD+ nucleosidase activity. Involved in several processes, including blood vessel diameter maintenance; long-term synaptic depression; and negative regulation of bone resorption. Localizes to basolateral plasma membrane; nucleus; and secretory granule membrane. Biomarker of type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus and type 2 diabetes mellitus. Orthologous to human CD38 (CD38 molecule); PARTICIPATES IN ADP-ribosylation pathway, cyclic ribosylation; calcium/calcium-mediated signaling pathway; monoterpenoid biosynthetic pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 2'-phospho-ADP-ribosyl cyclase; 2'-phospho-ADP-ribosyl cyclase/2'-phospho-cyclic-ADP-ribose transferase; 2'-phospho-cyclic-ADP-ribose transferase; ADP-ribosyl cyclase 1; ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1; ADPRC 1; cADPr hydrolase 1; CD38 antigen; CD38 antigen (ADP-ribosyl cyclase / cyclic ADP-ribose hydrolase); CD38H; cyclic ADP-ribose hydrolase 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21467,172,062 - 67,212,328 (-)NCBI
Rnor_6.0 Ensembl1471,715,269 - 71,754,672 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01471,714,768 - 71,754,990 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01471,745,754 - 71,786,080 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,320,479 - 72,360,329 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11472,322,869 - 72,362,720 (-)NCBI
Celera1466,130,278 - 66,169,650 (-)NCBICelera
Cytogenetic Map14q21NCBI
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
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
7-ketocholesterol  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benomyl  (EXP)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
calcitriol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
cisplatin  (ISO)
crocidolite asbestos  (ISO)
cyclic ADP-ribose  (ISO)
cycloheximide  (ISO)
cyclophosphamide  (ISO)
D-penicillamine  (EXP)
dacarbazine  (ISO)
DDE  (EXP)
Deoxycorticosterone acetate  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dibenziodolium  (ISO)
dichloromethane  (EXP)
diethylstilbestrol  (ISO)
dimethyl sulfoxide  (ISO)
ethanol  (ISO)
ethylbenzene  (EXP)
fenvalerate  (EXP)
flavonoids  (EXP)
flutamide  (EXP,ISO)
fonofos  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glycidol  (EXP)
hydroxychloroquine  (ISO)
indole-3-methanol  (EXP)
isoprenaline  (ISO)
isotretinoin  (ISO)
ketamine  (EXP)
lipopolysaccharide  (ISO)
LY294002  (ISO)
methotrexate  (ISO)
methyl beta-cyclodextrin  (ISO)
methyl methanesulfonate  (ISO)
morphine  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
NADP zwitterion  (ISO)
NADP(+)  (ISO)
nickel atom  (ISO)
nicotinamide  (ISO)
nicotinic acid-adenine dinucleotide phosphate  (ISO)
novobiocin  (ISO)
paraquat  (EXP)
parathion  (ISO)
PCB138  (EXP)
phenobarbital  (ISO)
progesterone  (EXP,ISO)
protein kinase inhibitor  (ISO)
quercitrin  (ISO)
resveratrol  (ISO)
Ro 31-8220  (ISO)
rotenone  (EXP,ISO)
rottlerin  (ISO)
SB 203580  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium chloride  (ISO)
Soman  (EXP)
sulfasalazine  (ISO)
superoxide  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
terbufos  (ISO)
testosterone  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Antonelli A, etal., Diabetologia. 2002 Sep;45(9):1298-306. Epub 2002 Jul 24.
2. Chen YG, etal., J Immunol. 2006 Sep 1;177(5):2939-47.
3. Chini EN, etal., Biochem J 2002 Feb 15;362(Pt 1):125-30.
4. de Toledo FG, etal., Biochem Biophys Res Commun. 1997 Sep 29;238(3):847-50.
5. Dogan S, etal., Biol Reprod. 2004 Jul;71(1):97-103. Epub 2004 Mar 3.
6. Dong M, etal., Org Biomol Chem. 2011 May 7;9(9):3246-57. doi: 10.1039/c0ob00768d. Epub 2011 Mar 23.
7. Gan BH, etal., Liver Int. 2005 Dec;25(6):1233-42.
8. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Ge ZD, etal., Basic Res Cardiol. 2002 Jul;97(4):312-9.
10. GOA data from the GO Consortium
11. Gul R, etal., Cardiovasc Res. 2009 Feb 15;81(3):582-91. Epub 2008 Aug 21.
12. Ikehata F, etal., J Clin Invest. 1998 Jul 15;102(2):395-401.
13. KEGG
14. Khoo KM and Chang CF, Int J Biochem Cell Biol 2002 Jan;34(1):43-54.
15. Kim SY, etal., Am J Physiol Renal Physiol. 2009 Feb;296(2):F291-7. Epub 2008 Dec 10.
16. Mallone R, etal., Diabetologia. 2002 Dec;45(12):1667-77. Epub 2002 Oct 24.
17. March S, etal., Am J Pathol. 2007 Jan;170(1):176-87.
18. Masuda W and Jimi E, Arch Biochem Biophys. 2011 Sep 15;513(2):131-9. doi: 10.1016/j.abb.2011.07.006. Epub 2011 Jul 19.
19. Matsuoka T, etal., Biochem Biophys Res Commun. 1995 Sep 5;214(1):239-46.
20. MGD data from the GO Consortium
21. NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. Ohtsuji M, etal., Exp Diabetes Res. 2008;2008:897508. Epub 2009 Mar 17.
23. Pipeline to import KEGG annotations from KEGG into RGD
24. Pupilli C, etal., J Pediatr Endocrinol Metab. 2005 Dec;18(12):1417-23.
25. Quarona V, etal., Cytometry B Clin Cytom. 2013 Jul-Aug;84(4):207-17. doi: 10.1002/cyto.b.21092. Epub 2013 Apr 10.
26. Reyes-Harde M, etal., Proc Natl Acad Sci U S A. 1999 Mar 30;96(7):4061-6.
27. RGD automated data pipeline
28. RGD automated import pipeline for gene-chemical interactions
29. Sun L, etal., J Cell Biol. 1999 Sep 6;146(5):1161-72.
30. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
31. Thai TL and Arendshorst WJ, Am J Physiol Renal Physiol. 2008 Aug;295(2):F360-8. Epub 2008 Jun 4.
32. Xie GH, etal., Biochem Biophys Res Commun. 2003 Aug 1;307(3):713-8.
33. Yagui K, etal., Diabetologia. 1998 Sep;41(9):1024-8.
34. Yue J, etal., J Biol Chem. 2009 Oct 23;284(43):29335-42. doi: 10.1074/jbc.M109.049767. Epub 2009 Aug 20.
35. Yusufi AN, etal., Am J Physiol Renal Physiol. 2001 Jul;281(1):F91-F102.
Additional References at PubMed
PMID:8037769   PMID:8061050   PMID:8666928   PMID:9324354   PMID:12403647   PMID:12807891   PMID:16493007   PMID:17652368   PMID:17875758   PMID:18456728   PMID:19513369   PMID:20870729  
PMID:22154909   PMID:22863568   PMID:23533145   PMID:26297248   PMID:27547294   PMID:28295574   PMID:28296029   PMID:29187364   PMID:32507768  


Genomics

Comparative Map Data
Cd38
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21467,172,062 - 67,212,328 (-)NCBI
Rnor_6.0 Ensembl1471,715,269 - 71,754,672 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01471,714,768 - 71,754,990 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01471,745,754 - 71,786,080 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,320,479 - 72,360,329 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11472,322,869 - 72,362,720 (-)NCBI
Celera1466,130,278 - 66,169,650 (-)NCBICelera
Cytogenetic Map14q21NCBI
CD38
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl415,778,275 - 15,853,232 (+)EnsemblGRCh38hg38GRCh38
GRCh38415,778,328 - 15,853,232 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37415,779,951 - 15,854,855 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36415,389,029 - 15,459,806 (+)NCBINCBI36hg18NCBI36
Build 34415,456,199 - 15,526,975NCBI
Celera416,244,567 - 16,315,338 (+)NCBI
Cytogenetic Map4p15.32NCBI
HuRef415,130,537 - 15,200,389 (+)NCBIHuRef
CHM1_1415,777,918 - 15,852,923 (+)NCBICHM1_1
Cd38
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39544,026,151 - 44,069,716 (+)NCBIGRCm39mm39
GRCm39 Ensembl544,025,895 - 44,069,717 (+)Ensembl
GRCm38543,868,809 - 43,912,374 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl543,868,553 - 43,912,375 (+)EnsemblGRCm38mm10GRCm38
MGSCv37544,260,066 - 44,303,613 (+)NCBIGRCm37mm9NCBIm37
MGSCv36544,157,098 - 44,200,622 (+)NCBImm8
Celera541,298,320 - 41,341,871 (+)NCBICelera
Cytogenetic Map5B3NCBI
cM Map523.85NCBI
Cd38
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554808,178,473 - 8,217,643 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554808,177,178 - 8,218,483 (-)NCBIChiLan1.0ChiLan1.0
CD38
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1415,525,835 - 15,587,677 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl415,525,835 - 15,587,677 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0410,228,803 - 10,295,129 (+)NCBIMhudiblu_PPA_v0panPan3
CD38
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1364,529,129 - 64,577,755 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl364,529,721 - 64,578,099 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha367,047,105 - 67,094,978 (-)NCBI
ROS_Cfam_1.0365,007,240 - 65,055,632 (-)NCBI
UMICH_Zoey_3.1364,496,819 - 64,544,484 (-)NCBI
UNSW_CanFamBas_1.0364,701,068 - 64,748,707 (-)NCBI
UU_Cfam_GSD_1.0365,061,119 - 65,108,887 (-)NCBI
Cd38
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528558,407,127 - 58,454,437 (-)NCBI
SpeTri2.0NW_00493647712,109,761 - 12,156,037 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD38
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl811,083,682 - 11,130,785 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1811,083,682 - 11,130,783 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2810,731,289 - 10,781,193 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CD38
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12734,375,859 - 34,449,131 (-)NCBI
ChlSab1.1 Ensembl2734,376,271 - 34,449,425 (-)Ensembl
Cd38
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475516,035,412 - 16,093,610 (-)NCBI

Position Markers
RH133845  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01471,716,000 - 71,716,204NCBIRnor6.0
Rnor_5.01471,746,986 - 71,747,190UniSTSRnor5.0
RGSC_v3.41472,321,210 - 72,321,414UniSTSRGSC3.4
Celera1466,131,009 - 66,131,213UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143316331673391571Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)144163756980841518Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:443
Count of miRNA genes:238
Interacting mature miRNAs:289
Transcripts:ENSRNOT00000004121
Prediction methods:Microtar, Miranda, 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.


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 26 38 30 19 30 19 4 11
Low 17 19 11 11 8 11 55 35 36 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004121   ⟹   ENSRNOP00000004121
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,715,269 - 71,754,672 (-)Ensembl
RefSeq Acc Id: NM_013127   ⟹   NP_037259
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21467,172,563 - 67,211,980 (-)NCBI
Rnor_6.01471,715,269 - 71,754,672 (-)NCBI
Rnor_5.01471,745,754 - 71,786,080 (-)NCBI
RGSC_v3.41472,320,479 - 72,360,329 (-)RGD
Celera1466,130,278 - 66,169,650 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251072   ⟹   XP_006251134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21467,172,062 - 67,212,328 (-)NCBI
Rnor_6.01471,714,768 - 71,754,990 (-)NCBI
Rnor_5.01471,745,754 - 71,786,080 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_037259 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251134 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA06129 (Get FASTA)   NCBI Sequence Viewer  
  BAA06457 (Get FASTA)   NCBI Sequence Viewer  
  EDL99952 (Get FASTA)   NCBI Sequence Viewer  
  Q64244 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_037259   ⟸   NM_013127
- UniProtKB: Q64244 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251134   ⟸   XM_006251072
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000004121   ⟸   ENSRNOT00000004121

Transcriptome

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

Promoters
RGD ID:13699353
Promoter ID:EPDNEW_R9877
Type:initiation region
Name:Cd38_1
Description:CD38 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_6.01471,754,678 - 71,754,738EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2303 AgrOrtholog
Ensembl Genes ENSRNOG00000003069 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000004121 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004121 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro ADP-ribosyl_cyclase UniProtKB/Swiss-Prot
  CD38 UniProtKB/Swiss-Prot
KEGG Report rno:25668 UniProtKB/Swiss-Prot
NCBI Gene 25668 ENTREZGENE
PANTHER PTHR10912 UniProtKB/Swiss-Prot
  PTHR10912:SF5 UniProtKB/Swiss-Prot
Pfam Rib_hydrolayse UniProtKB/Swiss-Prot
PhenoGen Cd38 PhenoGen
TIGR TC220739
UniProt CD38_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-06-27 Cd38  CD38 molecule  Cd38  CD38 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Cd38  CD38 antigen    CD38 antigen (ADP-ribosyl cyclase / cyclic ADP-ribose hydrolase)  Name updated 625702 APPROVED
2002-06-10 Cd38  CD38 antigen (ADP-ribosyl cyclase / cyclic ADP-ribose hydrolase)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in nucleus of hepatocytes and splenocytes in marginal zone and red pulp but not in splenic germinal centers 1299847
gene_function exhibits nuclear ADP-ribosyl cyclase activity 1299847
gene_process enzyme involved in synthesis of the Ca(2+)-releasing nucleotide nicotinic acid-adenine dinucleotide phosphate 631312