Clybl (citramalyl-CoA lyase) - Rat Genome Database
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Gene: Clybl (citramalyl-CoA lyase) Rattus norvegicus
Analyze
Symbol: Clybl
Name: citramalyl-CoA lyase
RGD ID: 1304615
Description: Predicted to have (S)-citramalyl-CoA lyase activity; magnesium ion binding activity; and malate synthase activity. Predicted to be involved in positive regulation of cobalamin metabolic process and protein homotrimerization. Predicted to localize to mitochondrion. Orthologous to human CLYBL (citramalyl-CoA lyase); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: (3S)-malyl-CoA thioesterase; beta-methylmalate synthase; citramalyl-CoA lyase, mitochondrial; citrate lyase beta like; citrate lyase beta-like; citrate lyase subunit beta-like protein, mitochondrial; LOC306198; malate synthase
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_6.015108,608,203 - 108,838,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15108,608,204 - 108,838,235 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015111,996,327 - 112,224,036 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415107,313,924 - 107,539,458 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.115107,403,371 - 107,555,046 (+)NCBI
Celera1598,056,530 - 98,276,073 (+)NCBICelera
Cytogenetic Map15q25NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:18614015   PMID:24334609   PMID:29056341  


Genomics

Comparative Map Data
Clybl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.015108,608,203 - 108,838,222 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15108,608,204 - 108,838,235 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015111,996,327 - 112,224,036 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415107,313,924 - 107,539,458 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.115107,403,371 - 107,555,046 (+)NCBI
Celera1598,056,530 - 98,276,073 (+)NCBICelera
Cytogenetic Map15q25NCBI
CLYBL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1399,606,669 - 99,897,134 (+)EnsemblGRCh38hg38GRCh38
GRCh381399,606,664 - 99,909,444 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3713100,258,919 - 100,549,388 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361399,056,937 - 99,342,825 (+)NCBINCBI36hg18NCBI36
Build 341399,056,936 - 99,342,824NCBI
Celera1381,103,446 - 81,393,885 (+)NCBI
Cytogenetic Map13q32.3NCBI
HuRef1380,853,642 - 81,143,528 (+)NCBIHuRef
CHM1_113100,228,926 - 100,531,700 (+)NCBICHM1_1
Clybl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914122,408,289 - 122,639,646 (+)NCBIGRCm39mm39
GRCm3814122,170,994 - 122,402,234 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14122,181,704 - 122,402,234 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714122,580,916 - 122,801,456 (+)NCBIGRCm37mm9NCBIm37
MGSCv3614121,316,901 - 121,537,408 (+)NCBImm8
Celera14120,744,413 - 120,964,342 (+)NCBICelera
Cytogenetic Map14E5NCBI
Clybl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540410,814,307 - 11,034,467 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540410,813,161 - 11,016,687 (-)NCBIChiLan1.0ChiLan1.0
CLYBL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11399,912,758 - 100,198,856 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1399,912,773 - 100,195,417 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01380,774,572 - 81,066,375 (+)NCBIMhudiblu_PPA_v0panPan3
CLYBL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2249,608,358 - 49,871,572 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12249,608,997 - 49,893,766 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Clybl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647210,666,345 - 10,919,694 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLYBL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1168,507,877 - 68,767,546 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11168,507,828 - 68,768,322 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21175,887,675 - 76,025,089 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLYBL
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1378,258,096 - 78,574,515 (+)NCBI
Clybl
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462479311,240,495 - 11,479,386 (-)NCBI

Position Markers
D15Rat28  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015108,680,022 - 108,680,176NCBIRnor6.0
Rnor_5.015112,067,388 - 112,067,542UniSTSRnor5.0
RGSC_v3.415107,377,866 - 107,378,349RGDRGSC3.4
RGSC_v3.415107,378,191 - 107,378,345UniSTSRGSC3.4
RGSC_v3.115107,393,971 - 107,394,125RGD
Celera1598,119,344 - 98,119,498UniSTS
Cytogenetic Map15q25UniSTS
RH 3.4 Map15708.6UniSTS
RH 3.4 Map15708.6RGD
RH 2.0 Map15611.7RGD
SHRSP x BN Map1566.4899RGD
FHH x ACI Map1574.04RGD
D15Rat157  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015108,816,785 - 108,817,001NCBIRnor6.0
Rnor_5.015112,202,616 - 112,202,832UniSTSRnor5.0
RGSC_v3.415107,516,238 - 107,516,454UniSTSRGSC3.4
RGSC_v3.415107,516,237 - 107,516,454RGDRGSC3.4
RGSC_v3.115107,532,018 - 107,532,234RGD
Celera1598,254,359 - 98,254,575UniSTS
Cytogenetic Map15q25UniSTS
RH 3.4 Map15713.4RGD
RH 3.4 Map15713.4UniSTS
RH 2.0 Map15616.3RGD
SHRSP x BN Map1565.4398RGD
AI256068  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015108,819,550 - 108,819,635NCBIRnor6.0
Rnor_5.015112,205,381 - 112,205,466UniSTSRnor5.0
RGSC_v3.415107,519,003 - 107,519,088UniSTSRGSC3.4
Celera1598,257,123 - 98,257,208UniSTS
Cytogenetic Map15q25UniSTS
RH143957  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015108,802,847 - 108,802,987NCBIRnor6.0
Rnor_5.015112,188,879 - 112,189,019UniSTSRnor5.0
RGSC_v3.415107,502,201 - 107,502,341UniSTSRGSC3.4
Celera1598,240,849 - 98,240,989UniSTS
Cytogenetic Map15q25UniSTS
RH 3.4 Map15704.7UniSTS
BE102058  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015108,607,146 - 108,607,306NCBIRnor6.0
Rnor_5.015111,995,289 - 111,995,449UniSTSRnor5.0
RGSC_v3.415107,312,867 - 107,313,027UniSTSRGSC3.4
Celera1598,055,473 - 98,055,633UniSTS
Cytogenetic Map15q25UniSTS
RH 3.4 Map15708.6UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1565520564110520564Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1575527634111246239Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1575761024109400896Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1581255292109133904Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1583947714111246239Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1584050550111246239Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1584050550111246239Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:236
Count of miRNA genes:99
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000018918, ENSRNOT00000042049
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 43 31 21 2 21 1 4 62 35 26 1
Low 1 26 20 17 20 7 7 12 15 11 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001100685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07019555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019559 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07019562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07072480 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01085999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01086005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC123185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM063772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000018918   ⟹   ENSRNOP00000018918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl15108,608,204 - 108,838,235 (+)Ensembl
RefSeq Acc Id: NM_001100685   ⟹   NP_001094155
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.015108,608,203 - 108,838,222 (+)NCBI
Rnor_5.015111,996,327 - 112,224,036 (+)NCBI
RGSC_v3.415107,313,924 - 107,539,458 (+)RGD
Celera1598,056,530 - 98,276,073 (+)RGD
Sequence:
RefSeq Acc Id: XM_017599721   ⟹   XP_017455210
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.015108,741,461 - 108,838,222 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001094155 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455210 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88243 (Get FASTA)   NCBI Sequence Viewer  
  EDM02576 (Get FASTA)   NCBI Sequence Viewer  
  Q5I0K3 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001094155   ⟸   NM_001100685
- Peptide Label: precursor
- UniProtKB: Q5I0K3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017455210   ⟸   XM_017599721
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000018918   ⟸   ENSRNOT00000018918

Transcriptome

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

Promoters
RGD ID:13699883
Promoter ID:EPDNEW_R10407
Type:multiple initiation site
Name:Clybl_1
Description:citrate lyase beta like
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_6.015108,608,210 - 108,608,270EPDNEW

Strain Variation

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


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 112223816 112223817 C T snv ACI/EurMcwi (MCW), ZFDM (KyushuU), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MHS/Gib (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SBH/Ygl (KNAW), SBN/Ygl (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NHsd (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), MNS/Gib (KNAW), WN/N (KNAW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), COP/CrCrl (MCW & UW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 108838002 108838003 C T snv ACI/EurMcwi (MCW), WKY/NHsd (RGD), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), CDR, CDS, ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), WN/N (MCW), FHL/EurMcwi (RGD), ACI/EurMcwi (RGD), BBDP/Wor (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), LE/Stm (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), SBN/Ygl (RGD), SR/JrHsd (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WAG/Rij (RGD), WKY/Gcrc (RGD), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 107539238 107539239 C T snv FHH/EurMcwi (MDC), DA/BklArbNsi (ICAHN), SS/JrHsdMcwi (MDC), ACI/N (KNAW), BUF/N (KNAW), F344/NRrrc (KNAW), LE/Stm (KNAW), M520/N (KNAW), MR/N (KNAW), WKY/N (KNAW), WN/N (KNAW), ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), ACI/EurMcwi (ICL), BBDP/WorN (ICL), F344/NCrl (ICL), LE/Stm (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), LEW/Crl (ICL), LEW/NCrl (ICL), LH/MavRrrc (ICL), LL/MavRrrc (ICL), LN/MavRrrc (ICL), MHS/Gib (ICL), MNS/Gib (ICL), SBH/Ygl (ICL), SBN/Ygl (ICL), SHRSP/Gcrc (ICL), SR/JrHsd (ICL), SS/Jr (ICL), SS/JrHsdMcwi (ICL), WAG/Rij (ICL), WKY/Gcrc (ICL), WKY/NHsd (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich), LCR/2Mco (UMich), F344/NHsd (ICAHN), SHRSP/Gcrc (MDC)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304615 AgrOrtholog
Ensembl Genes ENSRNOG00000014075 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000018918 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018918 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.20.20.60 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7366315 IMAGE-MGC_LOAD
InterPro Aldolase/citrate-lyase_domain UniProtKB/Swiss-Prot
  Citramalyl-CoA_lyase UniProtKB/Swiss-Prot
  Citrate_lyase_beta/mcl1/mcl2 UniProtKB/Swiss-Prot
  Pyrv/PenolPyrv_Kinase-like_dom UniProtKB/Swiss-Prot
  Pyrv_Kinase-like_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:306198 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109029 IMAGE-MGC_LOAD
NCBI Gene 306198 ENTREZGENE
PANTHER PTHR11105 UniProtKB/Swiss-Prot
Pfam HpcH_HpaI UniProtKB/Swiss-Prot
PhenoGen Clybl PhenoGen
PIRSF Cit_lyase_B UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51621 UniProtKB/Swiss-Prot
UniGene Rn.137340 ENTREZGENE
UniProt CLYBL_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-04-28 Clybl  citramalyl-CoA lyase  Clybl  citrate lyase beta like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Clybl  citrate lyase beta like  Clybl_predicted  citrate lyase beta like (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Clybl_predicted  citrate lyase beta like (predicted)      Symbol and Name status set to approved 70820 APPROVED