Cbs (cystathionine beta synthase) - Rat Genome Database

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Gene: Cbs (cystathionine beta synthase) Rattus norvegicus
Analyze
Symbol: Cbs
Name: cystathionine beta synthase
RGD ID: 2287
Description: Enables cystathionine beta-synthase activity. Involved in several processes, including cellular response to hypoxia; hydrogen sulfide biosynthetic process; and transsulfuration. Predicted to be located in nucleus. Predicted to be active in cytoplasm. Biomarker of hyperhomocysteinemia and vitamin B12 deficiency. Human ortholog(s) of this gene implicated in coronary artery disease; homocystinuria; hyperhomocysteinemia; malaria; and neural tube defect. Orthologous to human CBS (cystathionine beta-synthase); PARTICIPATES IN cysteine metabolic pathway; transsulfuration pathway of homocysteine metabolism; cystathioninuria pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: beta-thionase; cystathionine beta-synthase; cystathionine-beta-synthase; hemoprotein H-450; serine sulfhydrase
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
mRatBN7.2209,708,089 - 9,732,623 (-)NCBI
Rnor_6.0 Ensembl2010,361,988 - 10,386,751 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02010,361,987 - 10,386,663 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02012,549,959 - 12,574,111 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42010,047,478 - 10,075,520 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12010,047,871 - 10,075,744 (-)NCBI
Celera2011,221,836 - 11,246,354 (-)NCBICelera
RH 3.4 Map20114.36RGD
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1-nitropyrene  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenylacetic acid  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylonitrile  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
avobenzone  (ISO)
azoxystrobin  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
butan-1-ol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carbonates  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyanocob(III)alamin  (EXP)
cyclosporin A  (ISO)
D-glucose  (ISO)
deoxynivalenol  (ISO)
diclofenac  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
folic acid  (EXP,ISO)
formaldehyde  (EXP,ISO)
glucose  (ISO)
glutathione  (ISO)
glyphosate  (EXP)
homocysteine  (EXP,ISO)
hydrogen sulfide  (EXP,ISO)
hydroquinone  (ISO)
hydroxylamine  (EXP)
imidacloprid  (EXP)
indometacin  (ISO)
L-ascorbic acid  (ISO)
L-cysteine  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (EXP)
methapyrilene  (EXP)
methionine  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
Monobutylphthalate  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nickel dichloride  (EXP)
nitrogen dioxide  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
peroxynitrous acid  (ISO)
phenobarbital  (EXP,ISO)
phenylhydrazine  (EXP)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
Propiverine  (EXP)
prostaglandin E2  (ISO)
quercetin  (ISO)
reactive oxygen species  (EXP)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenite  (EXP,ISO)
streptozocin  (ISO)
sunitinib  (ISO)
superoxide  (ISO)
tert-butyl hydroperoxide  (ISO)
Tesaglitazar  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
thiabendazole  (EXP)
thioacetamide  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,ISO,ISS)
cytosol  (TAS)
nucleus  (ISO,ISS)

References

References - curated
1. Afman LA, etal., Mol Genet Metab. 2003 Mar;78(3):211-5.
2. Ahmad A, etal., Int J Mol Med. 2016 Dec;38(6):1683-1692. doi: 10.3892/ijmm.2016.2771. Epub 2016 Oct 14.
3. Allsop J and Watts RW, Clin Sci Mol Med Suppl. 1975 Jun;48(6):509-13.
4. Collin M, etal., Br J Pharmacol. 2005 Oct;146(4):498-505. doi: 10.1038/sj.bjp.0706367.
5. Doi T, etal., J Nutr Sci Vitaminol (Tokyo). 1989 Apr;35(2):101-10. doi: 10.3177/jnsv.35.101.
6. Fonseca V, etal., Metabolism. 2002 Jun;51(6):783-6. doi: 10.1053/meta.2002.32731.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. GOA data from the GO Consortium
9. House JD, etal., Biochem J 1997 Nov 15;328 ( Pt 1):287-92.
10. Hu FL, etal., Hum Mol Genet. 1993 Nov;2(11):1857-60.
11. Ishihara S, etal., J Biochem (Tokyo) 1990 Dec;108(6):899-902.
12. Janosikova B, etal., Mol Genet Metab. 2003 Jul;79(3):167-75.
13. KEGG
14. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
15. Li N, etal., Hypertension. 2006 Jun;47(6):1094-100. Epub 2006 Apr 24.
16. Martinez M, etal., J Nutr 2000 May;130(5):1115-23.
17. MGD data from the GO Consortium
18. Mirgal D, etal., Trans R Soc Trop Med Hyg. 2016 May;110(5):294-8. doi: 10.1093/trstmh/trw026.
19. NCBI rat LocusLink and RefSeq merged data July 26, 2002
20. Ohuchi S, etal., J Nutr Sci Vitaminol (Tokyo). 2009 Feb;55(1):22-30.
21. OMIM Disease Annotation Pipeline
22. Pipeline to import KEGG annotations from KEGG into RGD
23. Pipeline to import SMPDB annotations from SMPDB into RGD
24. Ratnam S, etal., J Biol Chem 2002 Nov 8;277(45):42912-8.
25. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
26. RGD automated import pipeline for gene-chemical interactions
27. RGD comprehensive gene curation
28. Saini V, etal., Nat Commun. 2020 Jan 28;11(1):557. doi: 10.1038/s41467-019-14132-y.
29. Sponholz C, etal., Eur J Hum Genet. 2016 Jul;24(7):1041-8. doi: 10.1038/ejhg.2015.231. Epub 2015 Oct 28.
30. Stipanuk MH and Ueki I, J Inherit Metab Dis. 2011 Feb;34(1):17-32. doi: 10.1007/s10545-009-9006-9. Epub 2010 Feb 17.
31. Swaroop M, etal., J Biol Chem 1992 Jun 5;267(16):11455-61.
32. Tay AS, etal., Neuroscience. 2010 May 5;167(2):277-86. doi: 10.1016/j.neuroscience.2010.02.006. Epub 2010 Feb 8.
33. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
34. Tsai MY, etal., Atherosclerosis. 2000 Mar;149(1):131-7. doi: 10.1016/s0021-9150(99)00297-x.
35. Tyagi N, etal., J Mol Neurosci. 2012 May;47(1):128-38. doi: 10.1007/s12031-011-9695-z. Epub 2012 Jan 3.
36. Wang CN, etal., Antioxid Redox Signal. 2014 Dec 1;21(16):2192-207. doi: 10.1089/ars.2013.5682. Epub 2014 May 27.
37. Zhao H, etal., Int Immunopharmacol. 2016 Oct;39:121-127. doi: 10.1016/j.intimp.2016.07.020. Epub 2016 Jul 26.
38. Zheng H, etal., Sheng Li Xue Bao. 2016 Oct 25;68(5):575-584.
Additional References at PubMed
PMID:7878023   PMID:7929220   PMID:8854863   PMID:8889548   PMID:10953023   PMID:10993757   PMID:11483494   PMID:12433838   PMID:15030387   PMID:15131763   PMID:15520012   PMID:15555590  
PMID:15622513   PMID:15916860   PMID:16160063   PMID:16189514   PMID:16226235   PMID:16780588   PMID:16984962   PMID:17087506   PMID:18541157   PMID:18701635   PMID:18776696   PMID:19010420  
PMID:19439522   PMID:19447967   PMID:19776636   PMID:20031578   PMID:20392694   PMID:21900206   PMID:22891245   PMID:22985361   PMID:23249427   PMID:23273102   PMID:23285261   PMID:23858469  
PMID:23981774   PMID:24328859   PMID:24416422   PMID:24490955   PMID:24515102   PMID:24534463   PMID:24783194   PMID:25416956   PMID:25502805   PMID:25773343   PMID:25797494   PMID:25873304  
PMID:26229403   PMID:26241765   PMID:27465493   PMID:27904035   PMID:27905525   PMID:28656194   PMID:28750410   PMID:29102635   PMID:29712513   PMID:29804940   PMID:31515488   PMID:32184133  


Genomics

Comparative Map Data
Cbs
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2209,708,089 - 9,732,623 (-)NCBI
Rnor_6.0 Ensembl2010,361,988 - 10,386,751 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02010,361,987 - 10,386,663 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02012,549,959 - 12,574,111 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42010,047,478 - 10,075,520 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12010,047,871 - 10,075,744 (-)NCBI
Celera2011,221,836 - 11,246,354 (-)NCBICelera
RH 3.4 Map20114.36RGD
Cytogenetic Map20p12NCBI
CBS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2143,053,191 - 43,076,943 (-)EnsemblGRCh38hg38GRCh38
GRCh382143,053,190 - 43,076,873 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372144,473,301 - 44,496,983 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362143,346,370 - 43,369,490 (-)NCBINCBI36hg18NCBI36
Build 342143,346,369 - 43,369,493NCBI
Celera2129,625,968 - 29,649,139 (-)NCBI
Cytogenetic Map21q22.3NCBI
HuRef2129,891,797 - 29,914,621 (-)NCBIHuRef
CHM1_12144,034,200 - 44,057,328 (-)NCBICHM1_1
Cbs
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391731,831,597 - 31,856,207 (-)NCBIGRCm39mm39
GRCm39 Ensembl1731,827,868 - 31,856,212 (-)Ensembl
GRCm381731,612,623 - 31,637,233 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1731,608,894 - 31,637,238 (-)EnsemblGRCm38mm10GRCm38
MGSCv371731,749,589 - 31,774,086 (-)NCBIGRCm37mm9NCBIm37
MGSCv361731,341,354 - 31,365,851 (-)NCBImm8
Celera1732,529,962 - 32,554,408 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1716.93NCBI
Cbs
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540738,924,355 - 38,939,790 (+)NCBIChiLan1.0ChiLan1.0
CBS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12142,670,530 - 42,693,300 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v02129,361,519 - 29,385,610 (-)NCBIMhudiblu_PPA_v0panPan3
CBS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13137,230,900 - 37,247,170 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3136,381,153 - 36,399,797 (-)NCBI
ROS_Cfam_1.03136,773,609 - 36,792,296 (-)NCBI
UMICH_Zoey_3.13136,640,852 - 36,659,539 (-)NCBI
UNSW_CanFamBas_1.03136,620,580 - 36,639,238 (-)NCBI
UU_Cfam_GSD_1.03137,118,109 - 37,136,774 (-)NCBI
Cbs
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497136,464,257 - 36,490,204 (-)NCBI
SpeTri2.0NW_004936500976,043 - 1,003,559 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.113206,205,942 - 206,231,363 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103221104
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1286,905,104 - 86,933,780 (-)NCBI
Vero_WHO_p1.0NW_02366605414,889,500 - 14,930,985 (-)NCBI
Cbs
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474527,676,430 - 27,687,573 (+)NCBI

Position Markers
RH94498  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2209,708,261 - 9,708,440 (+)MAPPER
Rnor_6.02010,362,160 - 10,362,338NCBIRnor6.0
Rnor_5.02012,550,132 - 12,550,310UniSTSRnor5.0
RGSC_v3.42010,047,651 - 10,047,829UniSTSRGSC3.4
Celera2011,222,009 - 11,222,187UniSTS
RH 3.4 Map20114.36UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RChigh CD8 T cell count to CD45RClow CD8 T cell count ratio (CMO:0001990)20485546810800530Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20587544818739210Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20865434118872273Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20865434130991290Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20965564214411641Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:462
Count of miRNA genes:226
Interacting mature miRNAs:270
Transcripts:ENSRNOT00000042432, ENSRNOT00000045275, ENSRNOT00000048219
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.


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 2 29 29 29 37 35 6
Low 1 36 28 12 19 12 4 6 35 32 11 4
Below cutoff 7 4 5 2 3 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000042432   ⟹   ENSRNOP00000039968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2010,362,172 - 10,386,751 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000045275   ⟹   ENSRNOP00000042958
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2010,361,988 - 10,386,663 (-)Ensembl
RefSeq Acc Id: NM_012522   ⟹   NP_036654
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2209,708,089 - 9,732,623 (-)NCBI
Rnor_6.02010,361,987 - 10,386,663 (-)NCBI
Rnor_5.02012,549,959 - 12,574,111 (-)NCBI
RGSC_v3.42010,047,478 - 10,075,520 (-)RGD
Celera2011,221,836 - 11,246,354 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036654   ⟸   NM_012522
- UniProtKB: P32232 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000042958   ⟸   ENSRNOT00000045275
RefSeq Acc Id: ENSRNOP00000039968   ⟸   ENSRNOT00000042432
Protein Domains
CBS

Transcriptome

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

Promoters
RGD ID:13701478
Promoter ID:EPDNEW_R12001
Type:multiple initiation site
Name:Cbs_1
Description:cystathionine beta synthase
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_6.02010,386,719 - 10,386,779EPDNEW

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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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:2287 AgrOrtholog
Ensembl Genes ENSRNOG00000029528 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000039968 UniProtKB/Swiss-Prot
  ENSRNOP00000042958 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000042432 UniProtKB/Swiss-Prot
  ENSRNOT00000045275 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.1100 UniProtKB/Swiss-Prot
InterPro CBS_dom UniProtKB/Swiss-Prot
  Cysta_beta_synth UniProtKB/Swiss-Prot
  P-phosphate_BS UniProtKB/Swiss-Prot
  PLP-dep UniProtKB/Swiss-Prot
  Trypto_synt_PLP_dependent UniProtKB/Swiss-Prot
KEGG Report rno:24250 UniProtKB/Swiss-Prot
NCBI Gene 24250 ENTREZGENE
Pfam CBS UniProtKB/Swiss-Prot
  PALP UniProtKB/Swiss-Prot
PharmGKB CBS RGD
PhenoGen Cbs PhenoGen
PROSITE CBS UniProtKB/Swiss-Prot
  CYS_SYNTHASE UniProtKB/Swiss-Prot
SMART CBS UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53686 UniProtKB/Swiss-Prot
TIGR TC208753
TIGRFAMs cysta_beta UniProtKB/Swiss-Prot
UniProt CBS_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cbs  Cystathionine beta synthase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in liver 634704
gene_function catalyzes the condensation of serine and homocysteine to cystathionine 634704
gene_process key enzyme involved in the transsulfuration pathway 634704
gene_regulation activity is regulated by insulin 634704
gene_transcript alternative splicing produces four distinct mRNA transcripts 1299859