Cth (cystathionine gamma-lyase) - Rat Genome Database

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Gene: Cth (cystathionine gamma-lyase) Rattus norvegicus
Analyze
Symbol: Cth
Name: cystathionine gamma-lyase
RGD ID: 2443
Description: Exhibits cystathionine beta-lyase activity. Involved in several processes, including alpha-amino acid metabolic process; glutathione metabolic process; and negative regulation of cell growth. Predicted to localize to cytoplasm. Used to study cataract. Human ortholog(s) of this gene implicated in amino acid metabolic disorder and cystathioninuria. Orthologous to human CTH (cystathionine gamma-lyase); PARTICIPATES IN cysteine metabolic pathway; transsulfuration pathway of homocysteine metabolism; cystathioninuria pathway; INTERACTS WITH (+)-schisandrin B; 1,2,4-trimethylbenzene; 1,2-dimethylhydrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: CTL target antigen; cystathionase (cystathionine gamma-lyase); cysteine-protein sulfhydrase; gamma-cystathionase; H; LOC103691744; PRB-RA; probasin-related antigen
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
mRatBN7.22246,975,888 - 247,002,234 (-)NCBI
Rnor_6.0 Ensembl2264,266,984 - 264,293,046 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02264,266,959 - 264,293,040 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02282,366,125 - 282,392,112 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42256,056,562 - 256,082,248 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12256,071,168 - 256,096,855 (-)NCBI
Celera2238,776,532 - 238,802,647 (-)NCBICelera
Cytogenetic Map2q45NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-demecolcine  (ISO)
1,1-dichloroethene  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acrylamide  (ISO)
acrylonitrile  (EXP)
adefovir pivoxil  (ISO)
aflatoxin B1  (ISO)
AM-251  (ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bexarotene  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
cannabidiol  (ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (EXP)
chloroacetaldehyde  (ISO)
chloroprene  (ISO)
chlorpromazine  (EXP)
choline  (ISO)
cisplatin  (EXP,ISO)
clodronic acid  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumarin  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
diiodine  (EXP)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
ethylbenzene  (ISO)
etoposide  (ISO)
fenofibrate  (EXP,ISO)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
glafenine  (EXP)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
hydrogen sulfide  (EXP,ISO)
hydroquinone  (ISO)
ibuprofen  (ISO)
ifosfamide  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
L-cysteine  (EXP,ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
leflunomide  (ISO)
lipopolysaccharide  (EXP,ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP)
metformin  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methoxyacetic acid  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
Monobutylphthalate  (ISO)
motexafin gadolinium  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosomorpholine  (EXP)
naphthalenes  (EXP)
nefazodone  (EXP)
neomycin  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nimesulide  (EXP)
nitric oxide  (EXP)
nitroflurbiprofen  (EXP)
O-methyleugenol  (ISO)
o-xylene  (ISO)
ochratoxin A  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
pirinixic acid  (EXP,ISO)
potassium bromate  (ISO)
potassium cyanide  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
quercetin  (EXP,ISO)
rac-lactic acid  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sodium perchlorate  (EXP)
Soman  (EXP)
streptozocin  (ISO)
succimer  (ISO)
sulforaphane  (EXP,ISO)
sunitinib  (ISO)
tauroursodeoxycholic acid  (EXP)
tert-butyl hydroperoxide  (EXP)
Tesaglitazar  (EXP)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
toluene  (ISO)
torcetrapib  (ISO)
tributyl phosphate  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (EXP,ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tris(2-chloroethyl) phosphate  (ISO)
Tungsten carbide  (ISO)
tunicamycin  (ISO)
undecane  (EXP)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zinc acetate  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:10212249   PMID:12477932   PMID:15038791   PMID:16189514   PMID:16396499   PMID:16507767   PMID:18184479   PMID:19019829   PMID:19056867   PMID:19428278   PMID:19903941   PMID:20439489  
PMID:21055229   PMID:21158086   PMID:21659522   PMID:22093698   PMID:22133746   PMID:22169477   PMID:22244329   PMID:22428706   PMID:22870268   PMID:24610811   PMID:25416956   PMID:25901909  
PMID:26021843   PMID:26319795   PMID:26378818   PMID:26519030   PMID:26963622   PMID:27324218   PMID:27468988   PMID:29880385  


Genomics

Comparative Map Data
Cth
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22246,975,888 - 247,002,234 (-)NCBI
Rnor_6.0 Ensembl2264,266,984 - 264,293,046 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02264,266,959 - 264,293,040 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02282,366,125 - 282,392,112 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42256,056,562 - 256,082,248 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12256,071,168 - 256,096,855 (-)NCBI
Celera2238,776,532 - 238,802,647 (-)NCBICelera
Cytogenetic Map2q45NCBI
CTH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl170,411,218 - 70,439,851 (+)EnsemblGRCh38hg38GRCh38
GRCh38170,411,268 - 70,441,949 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37170,876,951 - 70,905,534 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36170,649,543 - 70,677,841 (+)NCBINCBI36hg18NCBI36
Build 34170,588,975 - 70,617,273NCBI
Celera169,166,835 - 69,195,464 (+)NCBI
Cytogenetic Map1p31.1NCBI
HuRef168,987,754 - 69,016,606 (+)NCBIHuRef
CHM1_1170,992,268 - 71,020,901 (+)NCBICHM1_1
Cth
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393157,599,885 - 157,630,718 (-)NCBIGRCm39mm39
GRCm39 Ensembl3157,599,885 - 157,630,714 (-)Ensembl
GRCm383157,894,248 - 157,925,081 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3157,894,248 - 157,925,077 (-)EnsemblGRCm38mm10GRCm38
MGSCv373157,557,212 - 157,588,027 (-)NCBIGRCm37mm9NCBIm37
MGSCv363157,829,541 - 157,860,356 (-)NCBImm8
Celera3164,361,761 - 164,392,686 (-)NCBICelera
Cytogenetic Map3H4NCBI
Cth
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542321,542,179 - 21,567,786 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542321,542,587 - 21,567,935 (-)NCBIChiLan1.0ChiLan1.0
CTH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1171,629,637 - 71,657,322 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl171,629,333 - 71,677,666 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0169,646,608 - 69,674,301 (+)NCBIMhudiblu_PPA_v0panPan3
CTH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1675,324,328 - 75,348,476 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl675,324,787 - 75,349,451 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha677,937,741 - 77,962,253 (-)NCBI
ROS_Cfam_1.0675,916,530 - 75,940,965 (-)NCBI
UMICH_Zoey_3.1675,469,819 - 75,494,076 (-)NCBI
UNSW_CanFamBas_1.0675,365,148 - 75,389,608 (-)NCBI
UU_Cfam_GSD_1.0675,865,823 - 75,890,332 (-)NCBI
Cth
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505882,845,843 - 82,870,103 (+)NCBI
SpeTri2.0NW_0049365911,619,446 - 1,643,667 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CTH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6142,435,690 - 142,486,367 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16142,454,922 - 142,486,352 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26132,027,445 - 132,050,236 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CTH
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12062,672,820 - 62,718,608 (-)NCBI
ChlSab1.1 Ensembl2062,690,906 - 62,718,980 (-)Ensembl
Cth
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474225,619,261 - 25,642,477 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2228712271266435125Rat
631563Hcuc3Hepatic copper content QTL 33.87hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)2245893572266435125Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2229793522266435125Rat
631514Scl8Serum cholesterol level QTL84.4blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)2231621666266435125Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2229606682264899009Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2228712271266435125Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2240679103266435125Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2228712271266435125Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2240679103266435125Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2228712271266435125Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2228712271266435125Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:286
Count of miRNA genes:193
Interacting mature miRNAs:225
Transcripts:ENSRNOT00000067843
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 3 41 41 41 29 1
Low 21 16 16 4 6 74 6 34 11 4
Below cutoff 22 3 4 5 5 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067843   ⟹   ENSRNOP00000058914
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2264,266,984 - 264,293,046 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082532   ⟹   ENSRNOP00000072582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2264,270,096 - 264,293,010 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089714   ⟹   ENSRNOP00000073415
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2264,746,485 - 264,765,085 (-)Ensembl
RefSeq Acc Id: NM_017074   ⟹   NP_058770
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22246,975,888 - 247,002,219 (-)NCBI
Rnor_6.02264,267,029 - 264,293,016 (-)NCBI
Rnor_5.02282,366,125 - 282,392,112 (+)NCBI
RGSC_v3.42256,056,562 - 256,082,248 (-)RGD
Celera2238,776,532 - 238,802,647 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233536   ⟹   XP_006233598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22246,975,888 - 247,002,234 (-)NCBI
Rnor_6.02264,266,959 - 264,293,040 (-)NCBI
Rnor_5.02282,366,125 - 282,392,112 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058770   ⟸   NM_017074
- Sequence:
RefSeq Acc Id: XP_006233598   ⟸   XM_006233536
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000058914   ⟸   ENSRNOT00000067843
RefSeq Acc Id: ENSRNOP00000072582   ⟸   ENSRNOT00000082532
RefSeq Acc Id: ENSRNOP00000073415   ⟸   ENSRNOT00000089714

Transcriptome

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

Promoters
RGD ID:13691838
Promoter ID:EPDNEW_R2363
Type:multiple initiation site
Name:Cth_1
Description:cystathionine gamma-lyase
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_6.02264,293,054 - 264,293,114EPDNEW

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)
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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:2443 AgrOrtholog
  RGD:9153842 AgrOrtholog
Ensembl Genes ENSRNOG00000010658 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000057089 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000058914 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072582 UniProtKB/TrEMBL
  ENSRNOP00000073415 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067843 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000082532 UniProtKB/TrEMBL
  ENSRNOT00000089714 UniProtKB/TrEMBL
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.1150.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109746 IMAGE-MGC_LOAD
InterPro Cys/Met-Metab_PyrdxlP-dep_enz UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_dom1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:103691744 UniProtKB/TrEMBL
  rno:24962 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93537 IMAGE-MGC_LOAD
NCBI Gene 24962 ENTREZGENE
PANTHER PTHR11808 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cys_Met_Meta_PP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB CTH RGD
PhenoGen Cth PhenoGen
PIRSF CGS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYS_MET_METAB_PP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K3C5_RAT UniProtKB/TrEMBL
  A0A0G2K5G2_RAT UniProtKB/TrEMBL
  CGL_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9EQS4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Cth  cystathionine gamma-lyase  LOC103691744  cystathionine gamma-lyase  Data Merged 737654 PROVISIONAL
2014-08-25 LOC103691744  cystathionine gamma-lyase      Symbol and Name status set to provisional 70820 PROVISIONAL
2014-07-09 Cth  cystathionine gamma-lyase  Cth  cystathionase (cystathionine gamma-lyase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Cth  cystathionase (cystathionine gamma-lyase)    CTL target antigen  Name updated 1299863 APPROVED
2002-06-10 Cth  CTL target antigen      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in liver and brain 1298831
gene_product putative cystathionine gamma-lyase 1298831