Clybl (citramalyl-CoA lyase) - Rat Genome Database

Name: Clybl
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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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 ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CLYBL (citramalyl-CoA lyase)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Clybl (citrate lyase beta like)	HGNC	EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Clybl (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CLYBL (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CLYBL (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Clybl (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CLYBL (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CLYBL (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Clybl (citramalyl-CoA lyase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CLYBL (citramalyl-CoA lyase)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Clybl (citrate lyase beta like)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	clybl (citrate lyase beta like)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C01G10.7	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	15	108,608,203 - 108,838,222 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	15	108,608,204 - 108,838,235 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	15	111,996,327 - 112,224,036 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	15	107,313,924 - 107,539,458 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	15	107,403,371 - 107,555,046 (+)	NCBI
Celera	15	98,056,530 - 98,276,073 (+)	NCBI		Celera
Cytogenetic Map	15	q25	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

holoprosencephaly 5 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3-chloropropane-1,2-diol (EXP)

4-hydroxyphenyl retinamide (ISO)

acetamide (EXP)

aflatoxin B1 (ISO)

atrazine (EXP,ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

beta-naphthoflavone (EXP)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP)

cadmium dichloride (EXP,ISO)

choline (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

clobetasol (ISO)

clofibric acid (EXP)

cocaine (EXP)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

daunorubicin (ISO)

dibutyl phthalate (EXP,ISO)

dioxygen (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

folic acid (ISO)

glyphosate (EXP)

hydralazine (ISO)

indole-3-methanol (EXP)

L-methionine (ISO)

lipopolysaccharide (ISO)

MeIQx (ISO)

methyl methanesulfonate (ISO)

N-nitrosodiethylamine (EXP)

nickel atom (ISO)

O-methyleugenol (ISO)

paracetamol (ISO)

perfluorooctanoic acid (ISO)

phenylmercury acetate (ISO)

phlorizin (ISO)

pirinixic acid (ISO)

quercetin (ISO)

resveratrol (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium fluoride (ISO)

sulforaphane (ISO)

testosterone (EXP)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of cobalamin metabolic process (ISO)

protein homotrimerization (ISO,ISS)

regulation of cobalamin metabolic process (IBA,ISO,ISS)

Cellular Component

mitochondrion (IEA)

Molecular Function

(S)-citramalyl-CoA lyase activity (IBA,ISO,ISS)

hydrolase activity (IEA)

magnesium ion binding (ISO,ISS)

malate synthase activity (ISO,ISS)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	RGD automated data pipeline
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:18614015	PMID:24334609	PMID:29056341

Genomics

Comparative Map Data

Clybl
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	15	108,608,203 - 108,838,222 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	15	108,608,204 - 108,838,235 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	15	111,996,327 - 112,224,036 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	15	107,313,924 - 107,539,458 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	15	107,403,371 - 107,555,046 (+)	NCBI
Celera	15	98,056,530 - 98,276,073 (+)	NCBI		Celera
Cytogenetic Map	15	q25	NCBI

CLYBL
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	13	99,606,669 - 99,897,134 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	13	99,606,664 - 99,909,444 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	13	100,258,919 - 100,549,388 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	13	99,056,937 - 99,342,825 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	13	99,056,936 - 99,342,824	NCBI
Celera	13	81,103,446 - 81,393,885 (+)	NCBI
Cytogenetic Map	13	q32.3	NCBI
HuRef	13	80,853,642 - 81,143,528 (+)	NCBI		HuRef
CHM1_1	13	100,228,926 - 100,531,700 (+)	NCBI		CHM1_1

Clybl
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	14	122,408,289 - 122,639,646 (+)	NCBI	GRCm39		mm39
GRCm38	14	122,170,994 - 122,402,234 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	14	122,181,704 - 122,402,234 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	14	122,580,916 - 122,801,456 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	14	121,316,901 - 121,537,408 (+)	NCBI			mm8
Celera	14	120,744,413 - 120,964,342 (+)	NCBI		Celera
Cytogenetic Map	14	E5	NCBI

Clybl
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955404	10,814,307 - 11,034,467 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955404	10,813,161 - 11,016,687 (-)	NCBI	ChiLan1.0	ChiLan1.0

CLYBL
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	13	99,912,758 - 100,198,856 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	13	99,912,773 - 100,195,417 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	13	80,774,572 - 81,066,375 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

CLYBL
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	22	49,608,358 - 49,871,572 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	22	49,608,997 - 49,893,766 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Clybl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936472	10,666,345 - 10,919,694 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLYBL
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	11	68,507,877 - 68,767,546 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	11	68,507,828 - 68,768,322 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	11	75,887,675 - 76,025,089 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLYBL
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	3	78,258,096 - 78,574,515 (+)	NCBI

Clybl
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624793	11,240,495 - 11,479,386 (-)	NCBI

Position Markers

D15Rat28

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	15	108,680,022 - 108,680,176	NCBI	Rnor6.0
Rnor_5.0	15	112,067,388 - 112,067,542	UniSTS	Rnor5.0
RGSC_v3.4	15	107,377,866 - 107,378,349	RGD	RGSC3.4
RGSC_v3.4	15	107,378,191 - 107,378,345	UniSTS	RGSC3.4
RGSC_v3.1	15	107,393,971 - 107,394,125	RGD
Celera	15	98,119,344 - 98,119,498	UniSTS
Cytogenetic Map	15	q25	UniSTS
RH 3.4 Map	15	708.6	UniSTS
RH 3.4 Map	15	708.6	RGD
RH 2.0 Map	15	611.7	RGD
SHRSP x BN Map	15	66.4899	RGD
FHH x ACI Map	15	74.04	RGD

D15Rat157

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	15	108,816,785 - 108,817,001	NCBI	Rnor6.0
Rnor_5.0	15	112,202,616 - 112,202,832	UniSTS	Rnor5.0
RGSC_v3.4	15	107,516,238 - 107,516,454	UniSTS	RGSC3.4
RGSC_v3.4	15	107,516,237 - 107,516,454	RGD	RGSC3.4
RGSC_v3.1	15	107,532,018 - 107,532,234	RGD
Celera	15	98,254,359 - 98,254,575	UniSTS
Cytogenetic Map	15	q25	UniSTS
RH 3.4 Map	15	713.4	RGD
RH 3.4 Map	15	713.4	UniSTS
RH 2.0 Map	15	616.3	RGD
SHRSP x BN Map	15	65.4398	RGD

AI256068

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	15	108,819,550 - 108,819,635	NCBI	Rnor6.0
Rnor_5.0	15	112,205,381 - 112,205,466	UniSTS	Rnor5.0
RGSC_v3.4	15	107,519,003 - 107,519,088	UniSTS	RGSC3.4
Celera	15	98,257,123 - 98,257,208	UniSTS
Cytogenetic Map	15	q25	UniSTS

RH143957

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	15	108,802,847 - 108,802,987	NCBI	Rnor6.0
Rnor_5.0	15	112,188,879 - 112,189,019	UniSTS	Rnor5.0
RGSC_v3.4	15	107,502,201 - 107,502,341	UniSTS	RGSC3.4
Celera	15	98,240,849 - 98,240,989	UniSTS
Cytogenetic Map	15	q25	UniSTS
RH 3.4 Map	15	704.7	UniSTS

BE102058

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	15	108,607,146 - 108,607,306	NCBI	Rnor6.0
Rnor_5.0	15	111,995,289 - 111,995,449	UniSTS	Rnor5.0
RGSC_v3.4	15	107,312,867 - 107,313,027	UniSTS	RGSC3.4
Celera	15	98,055,473 - 98,055,633	UniSTS
Cytogenetic Map	15	q25	UniSTS
RH 3.4 Map	15	708.6	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631655	Bp126	Blood pressure QTL 126	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	15	65520564	110520564	Rat
731177	Uae26	Urinary albumin excretion QTL 26	2.4	0.025	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	15	75527634	111246239	Rat
2300326	Plaw1	Placental weight QTL 1	15	0.005	placenta mass (VT:0004257)	placenta wet weight (CMO:0002088)	15	75761024	109400896	Rat
1641889	Colcr6	Colorectal carcinoma resistance QTL 6	2.9	0.0126	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	15	81255292	109133904	Rat
70155	Gcs1	Gastric cancer susceptibility QTL1	3.8		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	15	83947714	111246239	Rat
1549844	Bss7	Bone structure and strength QTL 7	6.4		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	15	84050550	111246239	Rat
2317055	Aia10	Adjuvant induced arthritis QTL 10	3.41		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	15	84050550	111246239	Rat

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

View RNA-SEQ Expression Data

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 Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	15	108,608,204 - 108,838,235 (+)	Ensembl

RefSeq Acc Id:

NM_001100685 ⟹ NP_001094155

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	15	108,608,203 - 108,838,222 (+)	NCBI
Rnor_5.0	15	111,996,327 - 112,224,036 (+)	NCBI
RGSC_v3.4	15	107,313,924 - 107,539,458 (+)	RGD
Celera	15	98,056,530 - 98,276,073 (+)	RGD

Sequence:

show sequence

GCGGGCCACGTCGGGAAGATGGCGCTGTGTGTGCTGCAGAACGCGGTTCGCGGAGCGGCGGCGC
TGCCCAGGCTAAAGGCATCCCTCGTGGCCAGTGTCTGCAGGCCTGGGTACAGCTCCTTGTCCAA
TCACAAGTATGTCCCTCGGAGGGCAGTGCTCTATGTGCCTGGGAATGACGAAAAGAAAATAAGG
AAGATCCCATCTTTGAAAGTAGATTGTGCTGTGCTGGACTGCGAGGACGGTGTCGCGGAAAACA
AAAAGAACGAAGCTCGATTGAGAATAGCAAAAACTCTTGAAGACTTTGACCTGGGCACAACGGA
AAAGTGTGTGAGAATCAACTCAGTGTCTAGTGGTCTGGCTGAAGCCGACCTGGAGACATTTCTA
CAGGCCAGAGTTCTTCCTTCTAGTCTGATGCTACCAAAGGTAGAAGGTCCTGAAGAAATCCAGT
GGTTTTCAGACAAATTTTCACTCCACTTAAAAGGCCGAAAGCTTGAACAACCAATGAATTTAAT
CCCCTTTGTGGAGACTGCAATGGGTTTGCTCAATTTTAAGGCAGTGTGTGAAGAAACACTAAAG
ATTGGACCTCAAGTGGGTCTTTTCCTAGACGCAGTCGTTTTTGGAGGAGAAGATTTTCGAGCCA
GCATAGGTGCAACAAGCAACAAGGACACCCAAGACATCCTCTATGCCCGACAGAAGATTGTCGT
CACGGCAAAGGCCTTTGGCCTACAAGCCATAGATCTTGTATACATCGACTTCCGGGATGAAGAT
GGACTTCTCAGACAGTCTAGAGAAGCAGCCGCCATGGGCTTCACTGGTAAACAGGTGATCCACC
CTAACCAGATTGCCGTGGTACAGGAACAGTTTACTCCAACCCCGGAAAAAATTCGGTGGGCTGA
AGAGCTGATTGCTGCCTTCAAAGAACACCAGCAGTTGGGAAAGGGAGCCTTTACTTTCCAAGGA
AGTATGATCGACATGCCATTACTGAAGCAGGCCCAGAACATTGTTACGCTTGCCACATCCATCA
AGGAAAAATGATCTGTTAAATGAAGCCCTTCTCAGGCGGGCTGAATGGATACCGTGGGTTTCTT
AAAGACAAACCACAGTACCCAGGGCAGCTTGCTAGCACGCCGGATCGGGACCTCATCTCACGTT
AGTCACAACGCCCCCTCCCCTTGCATCTTACTGACCCGATATTCTAAAAATAAACGTTCTTCCC
TTGGAATCTAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_017599721 ⟹ XP_017455210

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	15	108,741,461 - 108,838,222 (+)	NCBI

Sequence:

show sequence

CACCTCTCATTGTTAATGCATATTTTTTTTTTTTTTTTGGTTCTTTTTTTCAGAGCTGGGGACC
GAACCCAGGGCCTTGCGCTTCCTAGAAAGGCATCCCTCGTGGCCAGTGTCTGCAGGCCTGGGTA
CAGCTCCTTGTCCAATCACAAGTATGTCCCTCGGAGGGCAGTGCTCTATGTGCCTGGGAATGAC
GAAAAGAAAATAAGGAAGATCCCATCTTTGAAAGTAGATTGTGCTGTGCTGGACTGCGAGGACG
GTGTCGCGGAAAACAAAAAGAACGAAGCTCGATTGAGAATAGCAAAAACTCTTGAAGACTTTGA
CCTGGGCACAACGGAAAAGTGTGTGAGAATCAACTCAGTGTCTAGTGGTCTGGCTGAAGCCGAC
CTGGAGACATTTCTACAGGCCAGAGTTCTTCCTTCTAGTCTGATGCTACCAAAGGTAGAAGGTC
CTGAAGAAATCCAGTGGTTTTCAGACAAATTTTCACTCCACTTAAAAGGCCGAAAGCTTGAACA
ACCAATGAATTTAATCCCCTTTGTGGAGACTGCAATGGGTTTGCTCAATTTTAAGGCAGTGTGT
GAAGAAACACTAAAGATTGGACCTCAAGTGGGTCTTTTCCTAGACGCAGTCGTTTTTGGAGGAG
AAGATTTTCGAGCCAGCATAGGTGCAACAAGCAACAAGGACACCCAAGACATCCTCTATGCCCG
ACAGAAGATTGTCGTCACGGCAAAGGCCTTTGGCCTACAAGCCATAGATCTTGTATACATCGAC
TTCCGGGATGAAGATGGACTTCTCAGACAGTCTAGAGAAGCAGCCGCCATGGGCTTCACTGGTA
AACAGGTGATCCACCCTAACCAGATTGCCGTGGTACAGGAACAGTTTACTCCAACCCCGGAAAA
AATTCGGTGGGCTGAAGAGCTGATTGCTGCCTTCAAAGAACACCAGCAGTTGGGAAAGGGAGCC
TTTACTTTCCAAGGAAGTATGATCGACATGCCATTACTGAAGCAGGCCCAGAACATTGTTACGC
TTGCCACATCCATCAAGGAAAAATGATCTGTTAAATGAAGCCCTTCTCAGGCGGGCTGAATGGA
TACCGTGGGTTTCTTAAAGACAAACCACAGTACCCAGGGCAGCTTGCTAGCACGCCGGATCGGG
ACCTCATCTCACGTTAGTCACAACGCCCCCTCCCCTTGCATCTTACTGACCCGATATTCTAAAA
ATAAACGTTCTTCCCTTGGAATCTAA

hide 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:	show sequence MALCVLQNAVRGAAALPRLKASLVASVCRPGYSSLSNHKYVPRRAVLYVPGNDEKKIRKIPSLK VDCAVLDCEDGVAENKKNEARLRIAKTLEDFDLGTTEKCVRINSVSSGLAEADLETFLQARVLP SSLMLPKVEGPEEIQWFSDKFSLHLKGRKLEQPMNLIPFVETAMGLLNFKAVCEETLKIGPQVG LFLDAVVFGGEDFRASIGATSNKDTQDILYARQKIVVTAKAFGLQAIDLVYIDFRDEDGLLRQS REAAAMGFTGKQVIHPNQIAVVQEQFTPTPEKIRWAEELIAAFKEHQQLGKGAFTFQGSMIDMP LLKQAQNIVTLATSIKEK hide sequence

RefSeq Acc Id:

XP_017455210 ⟸ XM_017599721

- Peptide Label:

isoform X1

- Sequence:

show sequence

MHIFFFFLVLFFRAGDRTQGLALPRKASLVASVCRPGYSSLSNHKYVPRRAVLYVPGNDEKKIR
KIPSLKVDCAVLDCEDGVAENKKNEARLRIAKTLEDFDLGTTEKCVRINSVSSGLAEADLETFL
QARVLPSSLMLPKVEGPEEIQWFSDKFSLHLKGRKLEQPMNLIPFVETAMGLLNFKAVCEETLK
IGPQVGLFLDAVVFGGEDFRASIGATSNKDTQDILYARQKIVVTAKAFGLQAIDLVYIDFRDED
GLLRQSREAAAMGFTGKQVIHPNQIAVVQEQFTPTPEKIRWAEELIAAFKEHQQLGKGAFTFQG
SMIDMPLLKQAQNIVTLATSIKEK

hide 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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	15	108,608,210 - 108,608,270	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/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)

ACI/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

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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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

External Database Links

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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar