Gfus (GDP-L-fucose synthase) - Rat Genome Database

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

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Gene: Gfus (GDP-L-fucose synthase) Rattus norvegicus

Analyze

Symbol:

Gfus

Name:

GDP-L-fucose synthase

RGD ID:

1307028

Description:

Predicted to have GDP-L-fucose synthase activity; GDP-mannose 3,5-epimerase activity; and identical protein binding activity. Predicted to be involved in several processes, including T cell mediated cytotoxicity; nucleotide-sugar metabolic process; and positive regulation of endothelial cell-matrix adhesion via fibronectin. Orthologous to human GFUS (GDP-L-fucose synthase); PARTICIPATES IN fructose and mannose metabolic pathway; fructosuria pathway; hereditary fructose intolerance syndrome pathway; INTERACTS WITH acetamide; bisphenol A; Brodifacoum.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-reductase; LOC300036; tissue specific transplantation antigen P35B; Tsta3

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):	GFUS (GDP-L-fucose synthase)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Gfus (GDP-L-fucose synthase)	HGNC	Treefam, EggNOG, NCBI, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Gfus (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	GFUS (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	GFUS (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Gfus (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	GFUS (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	GFUS (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Gfus (GDP-L-fucose synthase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	GFUS (GDP-L-fucose synthase)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Gfus (GDP-L-fucose synthase)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	tsta3l2 (tissue specific transplantation antigen P35B, like 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	zgc:100864	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	tsta3 (tissue specific transplantation antigen P35B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ger-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Gmer	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|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
mRatBN7.2	7	107,612,087 - 107,617,005 (-)	NCBI
Rnor_6.0 Ensembl	7	116,958,392 - 116,963,295 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	116,958,427 - 116,963,281 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	116,851,230 - 116,856,084 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	113,929,477 - 113,934,330 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	113,963,706 - 113,967,872 (-)	NCBI
Celera	7	103,969,092 - 103,973,946 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

14-Deoxy-11,12-didehydroandrographolide (ISO)

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

3,3',4,4'-tetrachlorobiphenyl (ISO)

acetamide (EXP)

acrolein (ISO)

alpha-pinene (ISO)

Aroclor 1254 (ISO)

arsenous acid (ISO)

atrazine (ISO)

bisphenol A (EXP)

Brodifacoum (EXP)

cadmium dichloride (ISO)

carbon nanotube (ISO)

choline (ISO)

cobalt dichloride (ISO)

cyclosporin A (ISO)

dextran sulfate (ISO)

diarsenic trioxide (ISO)

diazinon (ISO)

dibutyl phthalate (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

ethyl methanesulfonate (ISO)

flutamide (EXP)

folic acid (ISO)

L-methionine (ISO)

NADP zwitterion (ISO)

NADP(+) (ISO)

nickel atom (ISO)

nickel sulfate (ISO)

ozone (ISO)

paracetamol (ISO)

potassium chromate (ISO)

SB 431542 (ISO)

selenium atom (ISO)

sodium arsenite (EXP,ISO)

titanium dioxide (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

'de novo' GDP-L-fucose biosynthetic process (IEA,ISO)

GDP-mannose metabolic process (ISO)

obsolete oxidation-reduction process (IEA)

positive regulation of endothelial cell migration (ISO)

positive regulation of endothelial cell-matrix adhesion via fibronectin (ISO)

T cell mediated cytotoxicity (ISO)

Molecular Function

GDP-L-fucose synthase activity (IBA,ISO)

GDP-mannose 3,5-epimerase activity (ISO)

identical protein binding (ISO)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

amino sugar metabolic pathway (IEA)

fructose and mannose metabolic pathway (IEA,ISO)

fructosuria pathway (ISO)

hereditary fructose intolerance syndrome pathway (ISO)

nucleotide sugar metabolic pathway (IEA)

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.	GOA data from the GO Consortium
3.	Pipeline to import KEGG annotations from KEGG into RGD
4.	Pipeline to import SMPDB annotations from SMPDB into RGD
5.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:2568889	PMID:8910301	PMID:9525924	PMID:12477932	PMID:18205178	PMID:19056867	PMID:23774504

Genomics

Comparative Map Data

Gfus
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	107,612,087 - 107,617,005 (-)	NCBI
Rnor_6.0 Ensembl	7	116,958,392 - 116,963,295 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	116,958,427 - 116,963,281 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	116,851,230 - 116,856,084 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	113,929,477 - 113,934,330 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	113,963,706 - 113,967,872 (-)	NCBI
Celera	7	103,969,092 - 103,973,946 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

GFUS
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	8	143,612,618 - 143,618,048 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	8	143,612,618 - 143,618,043 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	8	144,694,788 - 144,699,719 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	8	144,694,788 - 144,700,358 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	144,765,933 - 144,770,038 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	8	144,765,932 - 144,770,039	NCBI
Celera	8	141,005,027 - 141,009,971 (-)	NCBI
Cytogenetic Map	8	q24.3	NCBI
HuRef	8	139,946,059 - 139,951,003 (-)	NCBI		HuRef
CHM1_1	8	144,735,027 - 144,739,971 (-)	NCBI		CHM1_1

Gfus
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	75,796,521 - 75,801,670 (-)	NCBI	GRCm39		mm39
GRCm38	15	75,924,669 - 75,929,821 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	75,924,676 - 75,929,832 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	75,755,113 - 75,760,160 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	15	75,751,938 - 75,756,985 (-)	NCBI			mm8
Celera	15	77,425,699 - 77,430,746 (-)	NCBI		Celera
Cytogenetic Map	15	D3	NCBI
cM Map	15	35.1	NCBI

Gfus
(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_004955454	2,313,172 - 2,317,829 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955454	2,313,172 - 2,317,829 (-)	NCBI	ChiLan1.0	ChiLan1.0

GFUS
(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	8	143,381,054 - 143,386,008 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	143,381,054 - 143,386,008 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	140,366,003 - 140,371,018 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

GFUS
(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	13	37,267,122 - 37,271,967 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	13	37,267,119 - 37,272,101 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Gfus
(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_004936470	8,523,240 - 8,527,451 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GFUS
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	950,177 - 959,682 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	950,947 - 955,865 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

GFUS
(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	8	137,833,033 - 137,837,975 (-)	NCBI
ChlSab1.1 Ensembl	8	137,833,317 - 137,837,943 (-)	Ensembl

Gfus
(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_004624735	13,129,572 - 13,134,285 (+)	NCBI

Position Markers

RH129008

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	7	116,958,451 - 116,958,657	NCBI	Rnor6.0
Rnor_5.0	7	116,851,254 - 116,851,460	UniSTS	Rnor5.0
RGSC_v3.4	7	113,929,501 - 113,929,707	UniSTS	RGSC3.4
Celera	7	103,969,116 - 103,969,322	UniSTS
RH 3.4 Map	7	785.5	UniSTS
Cytogenetic Map	7	q34	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
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	2920071	124838025	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	48118835	128611831	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	50704769	128085642	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	51251919	118477612	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	51251919	145729302	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	55072862	123602998	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	55072862	123602998	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	55072862	123602998	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	71448715	145729302	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	77428105	127748511	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	77428234	122421148	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	81645773	140745067	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	85595369	130595369	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	85595369	130595369	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	88365265	119318087	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	88365265	121986709	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	88365265	133365265	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	88365265	134673427	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	91018361	136018361	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	91832949	145158140	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	91832949	145158140	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	93726906	138726906	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	93726906	138726906	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	96630946	141630946	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	100028953	145729302	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	100160423	140335001	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	100192194	145192194	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	103815550	126525386	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	103867802	126080176	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	106564316	145729302	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	111519266	143965591	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	112429186	126525386	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	114825174	145729302	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	115922628	145729302	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	156
Count of miRNA genes:	114
Interacting mature miRNAs:	125
Transcripts:	ENSRNOT00000012306
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	35	57	41	19	41	8	11	74	35	41	11	8
Low		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001127455	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001270789	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001270790	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005486583	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005486584	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005486585	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC126537	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC158885	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BF289545	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CA339313	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK653514	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210097	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ221078	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229919	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000012306 ⟹ ENSRNOP00000012306

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	116,958,392 - 116,963,295 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000082058 ⟹ ENSRNOP00000071672

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	116,958,428 - 116,963,281 (-)	Ensembl

RefSeq Acc Id:

NM_001127455 ⟹ NP_001120927

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,094 - 107,616,948 (-)	NCBI
Rnor_6.0	7	116,958,427 - 116,963,281 (-)	NCBI
Rnor_5.0	7	116,851,230 - 116,856,084 (-)	NCBI
RGSC_v3.4	7	113,929,477 - 113,934,330 (-)	RGD
Celera	7	103,969,092 - 103,973,946 (-)	NCBI

Sequence:

show sequence

GGAAGTAGCTCTTGGACTAGTGGAACCCATCGCAGGTGCAGACCATAATGGGTGAACCCCACGG
ATCCATGAGGATCCTAGTAACAGGGGGCTCTGGACTGGTGGGCAGAGCCATCCAGAAGGTGGTC
GCAGATGGGGCCGGCTTGCCTGGAGAGGAATGGGTGTTTGTCTCCTCCAAAGATGCAGATCTGA
CGGATGCAGCGCAAACCCAAGCTCTGTTCCAGAAGGTACAGCCCACCCACGTCATCCATCTTGC
TGCAATGGTAGGCGGCCTTTTCCGGAATATTAAATACAACTTGGATTTCTGGAGGAAGAACGTG
CACATCAATGACAACGTCCTACATTCAGCCTTCGAGGTGGGCACACGCAAGGTGGTCTCCTGCC
TGTCCACCTGCATCTTCCCTGACAAGACCACCTATCCTATTGATGAGACCATGATCCACAACGG
GCCGCCTCACAGCAGCAATTTTGGGTACTCATATGCCAAGAGGATGATTGACGTGCAGAACAGG
GCCTACTTCCAGCAGCATGGCTGTACCTTCACCTCTGTCATCCCTACCAATGTCTTTGGGCCTT
ACGACAACTTCAACATCGAAGATGGCCACGTGCTGCCGGGCCTCATCCATAAGGTGCACCTGGC
CAAGAGCAGTGGTTCAGCCTTGACTGTGTGGGGTACGGGGAAGCCGCGGAGACAGTTCATCTAC
TCACTGGACCTAGCCCGGCTCTTCATCTGGGTCCTTCGGGAGTACAATGAGGTGGAGCCCATCA
TCCTCTCAGTGGGCGAGGAAGATGAAGTGTCTATCAAGGAGGCAGCTGAGGCTGTGGTGGAGGC
CATGGACTTCTCTGGGGAAGTCACTTTTGATTCAACAAAGTCAGATGGGCAGTATAAGAAGACA
GCCAGCAATGGCAAGTTGCGGTCCTACTTGCCTGACTTCTGTTTCACACCCTTCAAGCAGGCTG
TGAAGGAAACTTGTGCTTGGTTCACTGAAAACTACGAGCAGGCCCGGAAGTAAAGCACGGGCCA
AGCAGGTGCTCACCTGGCTACACCCAGTCAGTGGTCACCTCCTCGCTTCTTGCCAAGAACTGAG
GATAGTATCCAGCAACCTGAGCCACACGCTGACCTCTCTGCCAGGTGCTCCGTGCCGCTGTCCA
GTAGGGCCCATGTCCATCCCTGGGGAAAGGCCAGACCAACACCTTGCTTGTCTGCTTCTGCCCA
ACCTCAGTGTGTCCCTGCTGGTCTAGAAAGCAATAAAATGAATTTTCATGAGCCTGGAAAAAAA
AAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001270789 ⟹ NP_001257718

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,094 - 107,616,948 (-)	NCBI
Rnor_6.0	7	116,958,427 - 116,963,281 (-)	NCBI
Rnor_5.0	7	116,851,230 - 116,856,084 (-)	NCBI
Celera	7	103,969,092 - 103,973,946 (-)	NCBI

Sequence:

show sequence

GGAAGTAGCTCTTGGACTAGTGGAACCCATCGCAGGTGAGACTTACAGTTGGATACGGCGCAGC
AAACCAGGGACCTCGCAGGCTGGTCAGGGCCGTAAGAGTGCAGACCATAATGGGTGAACCCCAC
GGATCCATGAGGATCCTAGTAACAGGGGGCTCTGGACTGGTGGGCAGAGCCATCCAGAAGGTGG
TCGCAGATGGGGCCGGCTTGCCTGGAGAGGAATGGGTGTTTGTCTCCTCCAAAGATGCAGATCT
GACGGATGCAGCGCAAACCCAAGCTCTGTTCCAGAAGGTACAGCCCACCCACGTCATCCATCTT
GCTGCAATGGTAGGCGGCCTTTTCCGGAATATTAAATACAACTTGGATTTCTGGAGGAAGAACG
TGCACATCAATGACAACGTCCTACATTCAGCCTTCGAGGTGGGCACACGCAAGGTGGTCTCCTG
CCTGTCCACCTGCATCTTCCCTGACAAGACCACCTATCCTATTGATGAGACCATGATCCACAAC
GGGCCGCCTCACAGCAGCAATTTTGGGTACTCATATGCCAAGAGGATGATTGACGTGCAGAACA
GGGCCTACTTCCAGCAGCATGGCTGTACCTTCACCTCTGTCATCCCTACCAATGTCTTTGGGCC
TTACGACAACTTCAACATCGAAGATGGCCACGTGCTGCCGGGCCTCATCCATAAGGTGCACCTG
GCCAAGAGCAGTGGTTCAGCCTTGACTGTGTGGGGTACGGGGAAGCCGCGGAGACAGTTCATCT
ACTCACTGGACCTAGCCCGGCTCTTCATCTGGGTCCTTCGGGAGTACAATGAGGTGGAGCCCAT
CATCCTCTCAGTGGGCGAGGAAGATGAAGTGTCTATCAAGGAGGCAGCTGAGGCTGTGGTGGAG
GCCATGGACTTCTCTGGGGAAGTCACTTTTGATTCAACAAAGTCAGATGGGCAGTATAAGAAGA
CAGCCAGCAATGGCAAGTTGCGGTCCTACTTGCCTGACTTCTGTTTCACACCCTTCAAGCAGGC
TGTGAAGGAAACTTGTGCTTGGTTCACTGAAAACTACGAGCAGGCCCGGAAGTAAAGCACGGGC
CAAGCAGGTGCTCACCTGGCTACACCCAGTCAGTGGTCACCTCCTCGCTTCTTGCCAAGAACTG
AGGATAGTATCCAGCAACCTGAGCCACACGCTGACCTCTCTGCCAGGTGCTCCGTGCCGCTGTC
CAGTAGGGCCCATGTCCATCCCTGGGGAAAGGCCAGACCAACACCTTGCTTGTCTGCTTCTGCC
CAACCTCAGTGTGTCCCTGCTGGTCTAGAAAGCAATAAAATGAATTTTCATGAGCCTGGAAAAA
AAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001270790 ⟹ NP_001257719

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,094 - 107,616,948 (-)	NCBI
Rnor_6.0	7	116,958,427 - 116,963,281 (-)	NCBI
Rnor_5.0	7	116,851,230 - 116,856,084 (-)	NCBI
Celera	7	103,969,092 - 103,973,946 (-)	NCBI

Sequence:

show sequence

GGAAGTAGCTCTTGGACTAGTGGAACCCATCGCAGGTGAGACTTACAGTTGGATACGGCGCAGC
AAACCAGGGACCTCGCAGGCTGGTCAGGGCCGTAAGAGTGCAGACCATAATGGGTGAACCCCAC
GGATCCATGAGGATCCTAGTAACAGGGGGCTCTGGACTGGTGGGCAGAGCCATCCAGAAGGTGG
TCGCAGATGGGGCCGGCTTGCCTGGAGAGGAATGGGTGTTTGTCTCCTCCAAAGATGCAGATCT
GACGGATGCAGCGCAAACCCAAGCTCTGTTCCAGAAGGTACAGCCCACCCACGTCATCCATCTT
GCTGCAATGGTAGGCGGCCTTTTCCGGAATATTAAATACAACTTGGATTTCTGGATCCACAACG
GGCCGCCTCACAGCAGCAATTTTGGGTACTCATATGCCAAGAGGATGATTGACGTGCAGAACAG
GGCCTACTTCCAGCAGCATGGCTGTACCTTCACCTCTGTCATCCCTACCAATGTCTTTGGGCCT
TACGACAACTTCAACATCGAAGATGGCCACGTGCTGCCGGGCCTCATCCATAAGGTGCACCTGG
CCAAGAGCAGTGGTTCAGCCTTGACTGTGTGGGGTACGGGGAAGCCGCGGAGACAGTTCATCTA
CTCACTGGACCTAGCCCGGCTCTTCATCTGGGTCCTTCGGGAGTACAATGAGGTGGAGCCCATC
ATCCTCTCAGTGGGCGAGGAAGATGAAGTGTCTATCAAGGAGGCAGCTGAGGCTGTGGTGGAGG
CCATGGACTTCTCTGGGGAAGTCACTTTTGATTCAACAAAGTCAGATGGGCAGTATAAGAAGAC
AGCCAGCAATGGCAAGTTGCGGTCCTACTTGCCTGACTTCTGTTTCACACCCTTCAAGCAGGCT
GTGAAGGAAACTTGTGCTTGGTTCACTGAAAACTACGAGCAGGCCCGGAAGTAAAGCACGGGCC
AAGCAGGTGCTCACCTGGCTACACCCAGTCAGTGGTCACCTCCTCGCTTCTTGCCAAGAACTGA
GGATAGTATCCAGCAACCTGAGCCACACGCTGACCTCTCTGCCAGGTGCTCCGTGCCGCTGTCC
AGTAGGGCCCATGTCCATCCCTGGGGAAAGGCCAGACCAACACCTTGCTTGTCTGCTTCTGCCC
AACCTCAGTGTGTCCCTGCTGGTCTAGAAAGCAATAAAATGAATTTTCATGAGCCTGGAAAAAA
AAAAAAAAA

hide sequence

RefSeq Acc Id:

XR_005486583

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,087 - 107,616,962 (-)	NCBI

RefSeq Acc Id:

XR_005486584

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,087 - 107,617,005 (-)	NCBI

RefSeq Acc Id:

XR_005486585

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	107,612,087 - 107,616,955 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001120927	(Get FASTA)	NCBI Sequence Viewer
	NP_001257718	(Get FASTA)	NCBI Sequence Viewer
	NP_001257719	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI58886	(Get FASTA)	NCBI Sequence Viewer
	EDM16032	(Get FASTA)	NCBI Sequence Viewer
	EDM16033	(Get FASTA)	NCBI Sequence Viewer
	EDM16034	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001120927 ⟸ NM_001127455
- Peptide Label:	isoform a
- UniProtKB:	B0BNN0 (UniProtKB/TrEMBL), G3V762 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGEPHGSMRILVTGGSGLVGRAIQKVVADGAGLPGEEWVFVSSKDADLTDAAQTQALFQKVQPT HVIHLAAMVGGLFRNIKYNLDFWRKNVHINDNVLHSAFEVGTRKVVSCLSTCIFPDKTTYPIDE TMIHNGPPHSSNFGYSYAKRMIDVQNRAYFQQHGCTFTSVIPTNVFGPYDNFNIEDGHVLPGLI HKVHLAKSSGSALTVWGTGKPRRQFIYSLDLARLFIWVLREYNEVEPIILSVGEEDEVSIKEAA EAVVEAMDFSGEVTFDSTKSDGQYKKTASNGKLRSYLPDFCFTPFKQAVKETCAWFTENYEQAR K hide sequence

RefSeq Acc Id:	NP_001257719 ⟸ NM_001270790
- Peptide Label:	isoform b
- UniProtKB:	B0BNN0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGEPHGSMRILVTGGSGLVGRAIQKVVADGAGLPGEEWVFVSSKDADLTDAAQTQALFQKVQPT HVIHLAAMVGGLFRNIKYNLDFWIHNGPPHSSNFGYSYAKRMIDVQNRAYFQQHGCTFTSVIPT NVFGPYDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGKPRRQFIYSLDLARLFIWVLREYN EVEPIILSVGEEDEVSIKEAAEAVVEAMDFSGEVTFDSTKSDGQYKKTASNGKLRSYLPDFCFT PFKQAVKETCAWFTENYEQARK hide sequence

RefSeq Acc Id:	NP_001257718 ⟸ NM_001270789
- Peptide Label:	isoform a
- UniProtKB:	B0BNN0 (UniProtKB/TrEMBL), G3V762 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGEPHGSMRILVTGGSGLVGRAIQKVVADGAGLPGEEWVFVSSKDADLTDAAQTQALFQKVQPT HVIHLAAMVGGLFRNIKYNLDFWRKNVHINDNVLHSAFEVGTRKVVSCLSTCIFPDKTTYPIDE TMIHNGPPHSSNFGYSYAKRMIDVQNRAYFQQHGCTFTSVIPTNVFGPYDNFNIEDGHVLPGLI HKVHLAKSSGSALTVWGTGKPRRQFIYSLDLARLFIWVLREYNEVEPIILSVGEEDEVSIKEAA EAVVEAMDFSGEVTFDSTKSDGQYKKTASNGKLRSYLPDFCFTPFKQAVKETCAWFTENYEQAR K hide sequence

RefSeq Acc Id:

ENSRNOP00000071672 ⟸ ENSRNOT00000082058

RefSeq Acc Id:

ENSRNOP00000012306 ⟸ ENSRNOT00000012306

Protein Domains

Epimerase RmlD_sub_bind

Transcriptome

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

Promoters

RGD ID:

13695397

Promoter ID:

EPDNEW_R5920

Type:

multiple initiation site

Name:

Tsta3_1

Description:

tissue specific transplantation antigen P35B

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	7	116,963,271 - 116,963,331	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)

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1307028	AgrOrtholog
Ensembl Genes	ENSRNOG00000009020	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000012306	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000071672	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000012306	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000082058	ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:8363456	IMAGE-MGC_LOAD
InterPro	Epimerase_deHydtase	UniProtKB/TrEMBL
	GDP_fucose_synth	UniProtKB/TrEMBL
	NAD(P)-bd_dom_sf	UniProtKB/TrEMBL
	RmlD-like-bd	UniProtKB/TrEMBL
KEGG Report	rno:300036	UniProtKB/TrEMBL
MGC_CLONE	MGC:188615	IMAGE-MGC_LOAD
NCBI Gene	300036	ENTREZGENE
Pfam	Epimerase	UniProtKB/TrEMBL
	RmlD_sub_bind	UniProtKB/TrEMBL
PhenoGen	Gfus	PhenoGen
Superfamily-SCOP	SSF51735	UniProtKB/TrEMBL
UniProt	B0BNN0	ENTREZGENE, UniProtKB/TrEMBL
	G3V762	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2020-05-22	Gfus	GDP-L-fucose synthase	Tsta3	tissue specific transplantation antigen P35B	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Tsta3	tissue specific transplantation antigen P35B	Tsta3_predicted	tissue specific transplantation antigen P35B (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Tsta3_predicted	tissue specific transplantation antigen P35B (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 Annotations - SMPDB

Imported Annotations - KEGG (archival)