Csad (cysteine sulfinic acid decarboxylase) - Rat Genome Database
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Gene: Csad (cysteine sulfinic acid decarboxylase) Rattus norvegicus
Analyze
Symbol: Csad
Name: cysteine sulfinic acid decarboxylase
RGD ID: 621030
Description: Exhibits sulfinoalanine decarboxylase activity. Involved in L-cysteine catabolic process to hypotaurine and L-cysteine catabolic process to taurine. Localizes to cytoplasm. Orthologous to human CSAD (cysteine sulfinic acid decarboxylase); PARTICIPATES IN taurine and hypotaurine metabolic pathway; transsulfuration pathway of homocysteine metabolism; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 3,3',5-triiodo-L-thyronine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: aspartate 1-decarboxylase; cysteine-sulfinate decarboxylase; sulfinoalanine decarboxylase
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
Rnor_6.07143,781,520 - 143,810,880 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7143,781,702 - 143,793,970 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07141,579,061 - 141,608,043 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47140,917,995 - 140,944,405 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17140,994,262 - 141,036,798 (-)NCBI
Celera7129,743,152 - 129,755,012 (-)NCBICelera
Cytogenetic Map7q36NCBI
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
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
chlorohydrocarbon  (EXP)
clobetasol  (ISO)
clofibrate  (ISO)
cocaine  (EXP)
coumarin  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dioxygen  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
finasteride  (EXP)
folic acid  (ISO)
furan  (EXP,ISO)
gentamycin  (EXP)
glycidol  (EXP)
indometacin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
linezolid  (EXP)
lipopolysaccharide  (ISO)
methapyrilene  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
naphthalenes  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP,ISO)
pravastatin  (EXP,ISO)
propiconazole  (ISO)
Propiverine  (EXP)
quercetin  (ISO)
quinolin-8-ol  (ISO)
rac-lactic acid  (ISO)
ritodrine  (ISO)
sodium arsenite  (EXP)
succimer  (ISO)
tamoxifen  (ISO)
tauroursodeoxycholic acid  (EXP)
Tesaglitazar  (EXP)
testosterone  (EXP,ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IDA)
cytosol  (TAS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:15489334   PMID:17634260   PMID:24639894  


Genomics

Comparative Map Data
Csad
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.07143,781,520 - 143,810,880 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7143,781,702 - 143,793,970 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07141,579,061 - 141,608,043 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47140,917,995 - 140,944,405 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17140,994,262 - 141,036,798 (-)NCBI
Celera7129,743,152 - 129,755,012 (-)NCBICelera
Cytogenetic Map7q36NCBI
CSAD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1253,157,663 - 53,180,909 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1253,157,663 - 53,180,925 (-)EnsemblGRCh38hg38GRCh38
GRCh381253,157,663 - 53,181,663 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371253,551,447 - 53,575,422 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361251,837,714 - 51,860,647 (-)NCBINCBI36hg18NCBI36
Build 341251,837,714 - 51,860,647NCBI
Celera1253,200,050 - 53,223,033 (-)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1250,594,015 - 50,617,263 (-)NCBIHuRef
CHM1_11253,517,875 - 53,541,124 (-)NCBICHM1_1
Csad
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915102,085,432 - 102,113,487 (-)NCBIGRCm39mm39
GRCm3815102,176,997 - 102,205,052 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15102,176,999 - 102,204,724 (-)EnsemblGRCm38mm10GRCm38
MGSCv3715102,007,429 - 102,019,474 (-)NCBIGRCm37mm9NCBIm37
MGSCv3615102,005,032 - 102,017,077 (-)NCBImm8
Celera15104,331,920 - 104,345,992 (-)NCBICelera
Cytogenetic Map15F2NCBI
Csad
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955458423,085 - 433,429 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955458423,156 - 449,763 (-)NCBIChiLan1.0ChiLan1.0
CSAD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11236,354,360 - 36,379,738 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1236,354,437 - 36,379,738 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01235,572,064 - 35,598,077 (+)NCBIMhudiblu_PPA_v0panPan3
CSAD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl272,005,355 - 2,036,228 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1272,005,482 - 2,036,703 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Csad
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493651210,447,457 - 10,475,231 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSAD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl518,379,340 - 18,410,212 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1518,379,340 - 18,410,446 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2518,793,689 - 18,805,868 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CSAD
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11149,256,629 - 49,288,367 (-)NCBI
ChlSab1.1 Ensembl1149,256,628 - 49,288,112 (-)Ensembl
Csad
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249041,190,393 - 1,228,337 (-)NCBI

Position Markers
AI576585  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07143,782,141 - 143,782,357NCBIRnor6.0
Rnor_5.07141,579,682 - 141,579,898UniSTSRnor5.0
RGSC_v3.47140,918,446 - 140,918,662UniSTSRGSC3.4
Celera7129,743,603 - 129,743,819UniSTS
Cytogenetic Map7q36UniSTS
RH 3.4 Map71062.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:373
Count of miRNA genes:209
Interacting mature miRNAs:229
Transcripts:ENSRNOT00000016205
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


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 1 26 51 35 14 35 1 1 74 35 34 11 1
Low 2 17 6 6 5 6 7 10 7 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134454 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_021750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242438 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01052780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01052781 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC110347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH008061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ132615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ132661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU786150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU906909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M64755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U74492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X94152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016205   ⟹   ENSRNOP00000016205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7143,781,781 - 143,793,970 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079678   ⟹   ENSRNOP00000073508
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7143,781,702 - 143,793,774 (-)Ensembl
RefSeq Acc Id: NM_001134454   ⟹   NP_001127926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,690 - 143,793,770 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
RGSC_v3.47140,917,995 - 140,944,405 (-)RGD
Celera7129,743,152 - 129,754,812 (-)NCBI
Sequence:
RefSeq Acc Id: NM_021750   ⟹   NP_068518
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,747 - 143,793,970 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
RGSC_v3.47140,917,995 - 140,944,405 (-)RGD
Celera7129,743,209 - 129,755,012 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242438   ⟹   XP_006242500
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,810,880 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242439   ⟹   XP_006242501
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,810,087 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242440   ⟹   XP_006242502
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,810,880 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242442   ⟹   XP_006242504
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,809,953 (-)NCBI
Rnor_5.07141,579,061 - 141,608,043 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765782   ⟹   XP_008764004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,809,724 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595076   ⟹   XP_017450565
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07143,781,520 - 143,809,930 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_068518   ⟸   NM_021750
- Peptide Label: isoform 1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001127926   ⟸   NM_001134454
- Peptide Label: isoform 2
- Sequence:
RefSeq Acc Id: XP_006242500   ⟸   XM_006242438
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242502   ⟸   XM_006242440
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242501   ⟸   XM_006242439
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242504   ⟸   XM_006242442
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008764004   ⟸   XM_008765782
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017450565   ⟸   XM_017595076
- Peptide Label: isoform X1
- UniProtKB: Q64611 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016205   ⟸   ENSRNOT00000016205
RefSeq Acc Id: ENSRNOP00000073508   ⟸   ENSRNOT00000079678

Transcriptome

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

Promoters
RGD ID:13695692
Promoter ID:EPDNEW_R6217
Type:initiation region
Name:Csad_1
Description:cysteine sulfinic acid decarboxylase
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_6.07143,794,012 - 143,794,072EPDNEW

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)
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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)
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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
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:621030 AgrOrtholog
Ensembl Genes ENSRNOG00000011573 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016205 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000073508 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016205 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000079678 UniProtKB/TrEMBL
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7106840 IMAGE-MGC_LOAD
InterPro PyrdxlP-dep_de-COase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pyridoxal-P_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60356 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93461 IMAGE-MGC_LOAD
NCBI Gene 60356 ENTREZGENE
Pfam Pyridoxal_deC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Csad PhenoGen
PROSITE DDC_GAD_HDC_YDC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.43232 ENTREZGENE
UniProt A0A0G2K5P7_RAT UniProtKB/TrEMBL
  B3VPA7_RAT UniProtKB/TrEMBL
  B5LSW7_RAT UniProtKB/TrEMBL
  CSAD_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9R1F5_RAT UniProtKB/TrEMBL
UniProt Secondary Q546T1 UniProtKB/Swiss-Prot
  Q64577 UniProtKB/Swiss-Prot
  Q9R1F6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Csad  cysteine sulfinic acid decarboxylase    cysteine-sulfinate decarboxylase  Name updated 1299863 APPROVED
2002-08-07 Csad  cysteine-sulfinate decarboxylase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation expression and activity are inhibited by triiodothyronine and estrogen 632596