Fetub (fetuin B) - Rat Genome Database

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

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Gene: Fetub (fetuin B) Rattus norvegicus

Analyze

Symbol:

Fetub

Name:

fetuin B

RGD ID:

69293

Description:

Predicted to have metalloendopeptidase inhibitor activity. Predicted to be involved in binding activity of sperm to zona pellucida and negative regulation of endopeptidase activity. Predicted to localize to extracellular region. Orthologous to human FETUB (fetuin B); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

Fet; Fet_mapped; Fetuin (phosphoprotein, 63 kDa); fetuin beta; fetuin phosphoprotein; fetuin phosphoprotein (mapped); fetuin-B; fetuin-like protein IRL685; IRL685; Pp63

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):	FETUB (fetuin B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Fetub (fetuin beta)	HGNC	Treefam, EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Fetub (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	FETUB (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	FETUB (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Fetub (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	FETUB (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	FETUB (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Fetub (fetuin B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Fetub (fetuin beta)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	FETUB (fetuin B)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	si:ch211-262h13.5	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|TreeFam)
Danio rerio (zebrafish):	si:ch211-284e20.8	Alliance	DIOPT (InParanoid\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	fetub (fetuin B)	Alliance	DIOPT (Hieranoid\|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	11	78,082,158 - 78,093,022 (-)	NCBI
Rnor_6.0 Ensembl	11	81,648,885 - 81,660,395 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	81,648,890 - 81,660,472 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	84,745,605 - 84,758,630 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	80,276,852 - 80,285,039 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	80,334,442 - 80,342,628 (-)	NCBI
Celera	11	76,955,006 - 76,965,868 (-)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

3MC syndrome 1 (ISO)

Spontaneous Abortions (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1-naphthyl isothiocyanate (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2-hydroxypropanoic acid (ISO)

4-hydroxyphenyl retinamide (ISO)

acetamide (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

cadmium dichloride (EXP,ISO)

carbon nanotube (ISO)

chloroprene (ISO)

chlorpromazine (ISO)

cisplatin (ISO)

clofibrate (EXP)

cobalt dichloride (EXP)

copper(II) chloride (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dichloroacetic acid (ISO)

dioxygen (EXP)

doxorubicin (EXP)

folic acid (ISO)

formaldehyde (ISO)

furan (EXP)

genistein (EXP,ISO)

isoprenaline (ISO)

methapyrilene (EXP)

methyltestosterone (ISO)

N-methyl-4-phenylpyridinium (ISO)

naphthalene (ISO)

nickel sulfate (ISO)

O-methyleugenol (ISO)

obeticholic acid (ISO)

paracetamol (EXP,ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (EXP)

pirinixic acid (ISO)

potassium dichromate (ISO)

rac-lactic acid (ISO)

silicon dioxide (EXP,ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sulforaphane (ISO)

tetrachloromethane (EXP)

titanium dioxide (EXP,ISO)

Triptolide (EXP)

urethane (ISO)

valproic acid (ISO)

zinc atom (EXP)

zinc(0) (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

binding of sperm to zona pellucida (IBA,ISO,ISS)

negative regulation of endopeptidase activity (IBA,IEA,ISO,ISS)

single fertilization (ISO,ISS)

Cellular Component

extracellular region (IBA)

extracellular space (IEA)

Molecular Function

cysteine-type endopeptidase inhibitor activity (IEA)

endopeptidase inhibitor activity (IBA)

enzyme inhibitor activity (IEA)

metalloendopeptidase inhibitor activity (IBA,ISO,ISS)

protein binding (ISO)

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.	MGD data from the GO Consortium
4.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	Olivier E, etal., Biochem J 2000 Sep 1;350 Pt 2:589-97.
6.	RGD automated data pipeline
7.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	RGD automated import pipeline for gene-chemical interactions
9.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:1300185	PMID:12676929	PMID:23533145	PMID:23562279

Genomics

Comparative Map Data

Fetub
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	78,082,158 - 78,093,022 (-)	NCBI
Rnor_6.0 Ensembl	11	81,648,885 - 81,660,395 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	81,648,890 - 81,660,472 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	84,745,605 - 84,758,630 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	80,276,852 - 80,285,039 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	80,334,442 - 80,342,628 (-)	NCBI
Celera	11	76,955,006 - 76,965,868 (-)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

FETUB
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	186,635,969 - 186,653,141 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	186,635,969 - 186,653,141 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	186,353,758 - 186,370,930 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	187,840,843 - 187,853,491 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	187,840,850 - 187,853,498	NCBI
Celera	3	184,794,517 - 184,807,165 (+)	NCBI
Cytogenetic Map	3	q27.3	NCBI
HuRef	3	183,767,693 - 183,780,343 (+)	NCBI		HuRef
CHM1_1	3	186,322,116 - 186,334,762 (+)	NCBI		CHM1_1

Fetub
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	22,737,132 - 22,758,518 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	16	22,737,084 - 22,758,528 (+)	Ensembl
GRCm38	16	22,918,382 - 22,939,768 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	22,918,334 - 22,939,778 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	22,918,455 - 22,939,841 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	22,835,635 - 22,855,086 (+)	NCBI			mm8
Celera	16	23,478,707 - 23,499,723 (+)	NCBI		Celera
Cytogenetic Map	16	B1	NCBI
cM Map	16	13.76	NCBI

Fetub
(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_004955420	21,040,621 - 21,054,391 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955420	21,041,419 - 21,054,043 (-)	NCBI	ChiLan1.0	ChiLan1.0

FETUB
(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	3	192,142,595 - 192,155,297 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	192,142,702 - 192,154,920 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	183,675,258 - 183,687,754 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

FETUB
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	34	19,259,362 - 19,273,030 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	34	19,259,357 - 19,273,030 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	34	23,344,736 - 23,358,404 (+)	NCBI
ROS_Cfam_1.0	34	19,170,300 - 19,183,973 (+)	NCBI
UMICH_Zoey_3.1	34	19,202,641 - 19,216,289 (+)	NCBI
UNSW_CanFamBas_1.0	34	19,202,473 - 19,216,130 (+)	NCBI
UU_Cfam_GSD_1.0	34	19,430,947 - 19,444,615 (+)	NCBI

Fetub
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	117,210,109 - 117,225,168 (-)	NCBI
SpeTri2.0	NW_004936578	3,302,005 - 3,310,536 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FETUB
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	124,460,272 - 124,494,196 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	124,480,456 - 124,494,197 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	133,870,414 - 133,884,133 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FETUB
(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	15	2,773,057 - 2,790,944 (-)	NCBI
ChlSab1.1 Ensembl	15	2,770,927 - 2,790,248 (-)	Ensembl

Fetub
(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_004624730	70,092,056 - 70,112,025 (-)	NCBI

Position Markers

RH134374

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	78,082,203 - 78,082,406 (+)	MAPPER
Rnor_6.0	11	81,648,936 - 81,649,138	NCBI	Rnor6.0
Rnor_5.0	11	84,745,651 - 84,745,853	UniSTS	Rnor5.0
RGSC_v3.4	11	80,276,898 - 80,277,100	UniSTS	RGSC3.4
Celera	11	76,955,052 - 76,955,254	UniSTS
RH 3.4 Map	11	649.9	UniSTS
Cytogenetic Map	11	q23	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
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	19016272	90463843	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	28314665	86994795	Rat
1300110	Stl7	Serum triglyceride level QTL 7	4.64		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	11	30435339	86714631	Rat
2298551	Neuinf10	Neuroinflammation QTL 10	3.7		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	11	32155520	82443118	Rat
1300135	Rf19	Renal function QTL 19	3.38		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	11	43090338	86714631	Rat
2312566	Glom20	Glomerulus QTL 20	3.6	0.001	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	46583209	86714631	Rat
1581565	Pur10	Proteinuria QTL 10		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
1581572	Uae35	Urinary albumin excretion QTL 35		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
724561	Plsm4	Polydactyly-luxate syndrome (PLS) morphotypes QTL 4		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	11	57858810	90463843	Rat
7411658	Foco27	Food consumption QTL 27	16.2	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	11	59943023	90463843	Rat
4889521	Gluco62	Glucose level QTL 62	2.82	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	60109842	87141948	Rat
631506	Bp104	Blood pressure QTL 104	2.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	62653365	86714475	Rat
70208	Niddm22	Non-insulin dependent diabetes mellitus QTL 22	3.61		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	62653365	86714483	Rat
10058954	Gmadr7	Adrenal mass QTL 7	2.49	0.0049	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	64494671	90463843	Rat
1549848	Bvd6	Brain ventricular dilatation QTL 6	3.1	0.0001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	11	69342319	86312439	Rat
1354593	Stl12	Serum triglyceride level QTL 12	3.36		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	11	69649708	90463843	Rat
1354656	Bvd3	Brain ventricular dilatation QTL 3	3.64	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	11	72720029	86994795	Rat
10450831	Scl80	Serum cholesterol level QTL 80	4.7	0.01	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	11	80358408	87200449	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	193
Count of miRNA genes:	105
Interacting mature miRNAs:	110
Transcripts:	ENSRNOT00000046199, ENSRNOT00000048739
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			27	27		21
Medium			20	18		18				8	2	11
Low		3	16	2	19	2	4	4	10	17	27		4
Below cutoff	1	13					4	5	18	8	7		4

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001309522	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_053348	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AJ242926	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC070508	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473999	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ209398	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ209449	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ209518	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ209610	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ209832	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210294	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211050	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211248	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218476	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218557	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218709	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218884	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218893	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218905	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218930	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219048	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219152	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219170	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219190	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219266	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219352	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219426	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219454	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219459	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219500	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219513	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219733	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	MW395163	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000048739 ⟹ ENSRNOP00000051504

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	81,648,885 - 81,660,395 (-)	Ensembl

RefSeq Acc Id:

NM_001309522 ⟹ NP_001296451

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	78,082,174 - 78,093,022 (-)	NCBI
Rnor_6.0	11	81,648,906 - 81,660,472 (-)	NCBI
Celera	11	76,955,022 - 76,965,868 (-)	NCBI

Sequence:

show sequence

ACTCCTGAGATCAGAGCCCTTGGGACTTAATCTCCTCTTTAAAGGAGCCACCTCTCCACCAGTT
TCATAAGTGATTTGTTTTTTTCCAACATCTGAGCTTTGGGAACATGTTCAAAGCACATCAGTCT
TGCTAAGCTCTTGATTCTGGACAGCCTACCTCGATTCCTGGCATTGTGTGGTTGCTCAATAAGA
ACCTGTGAGTTACAGGGAACTGTATTACGCAACATCTAACCACGGCTAGCCTTCTGCACCAACC
GTTTCTGGTGCAGAGTCATGATTAGCAGATTTCACAGATGTGGCAGTGTGACTTCCAGCGGAAT
GGGTGTGCTACGGCTTCTGGTGCTCTGCACCCTGGCTGCATGCTGTGTGGCCCGCTCTCCCCCA
GCTCCACCCCTGCCAAACGCCCCCTTCGCACCTCTGCGTCCCCTGGGCTGTAACGACTCTGAAG
TGCTGGCAGTTGCAGGTTTTGCCCTGCAGAACATCAACAGAGTCCAAAAGGATGGCTACATGTT
GACCCTCAACAGAGTACACGATGCTCGGGTTCACCGTCAGGAAGACATGGGCTCTCTGTTCTAC
CTCATGCTGGACGTCTTAGAGACTGGCTGCCACGTGCTCAGCAGGAAGGCACTGAAGGACTGCG
GACCGAGGATTTTCTATGAGACTGTTCATGGACAGTGCAAAGCTATGTTTCACGTTAACAAGCC
AAGAAGAGTTCTCTACTTACCTGCTTATAACTGTACACTTCGCCCAGTTTCTAAAAGGAAGATT
CATTCTATGTGCCCTGACTGCCCGCATCCCGTTGACTTGTCAGCCCCCAGTGTTCTGGAAGCTG
CCACAGAATCACTTGCGAAGTTTAACAGCGAGAACCCCTCAAAACAATATGCACTCGTCAAAGT
CACCAAGGCTACGACCCAGTGGGTGGTTGGTCCTTCTTACTTTGTGGAATATTTGATCAAAGAG
TCACCATGTACCCAGTCTCAGGACAGCTGTTCACTCCAGGCCTCCGACTCTGAGCCCGTTGGTC
TTTGCCAAGGTTCACTGATTAAAAGTCCCGGGGTCCCTCCTCAACGCTTTAAAAAGACTGTCAC
TGTGTCGTGCGAGTTTTTCGAATCTCAGGACCAGGTCCCTGGAGGTGAGAACCCTGCTGATACC
CAAGATGCTAAGAAACTCCCTCAGAAAAACACAGCCCCTACCAGCTCACCCTCCATAACTGCAC
CAAGAGGATCTATCCAACACCTCCCTGAGCAGGAGGAGCCTGAAGACTCCAAGGGAAAGAGTCC
TGAGGAACCCTTTCCTGTGCAGCTGGATCTAACCACAAACCCACAGGGTGACACACTGGATGTC
TCCTTCCTCTACCTGGAGCCTGAGGAAAAGAAACTGGTGGTCCTGCCTTTCCCTGGGAAGGAAC
AGCGCTCCCCTGAGTGCCCGGGGCCCGAAAAGCAAAGAACCCCCTGATGCTCCCCGCTGAGACT
CACTAGCAGGGTTCCACGGGGTACGGTCCCCTGCAGTAGATGGGAGGTGGTGGGCATTGGGAAG
GCACAGACAATCAAATGTAGACCGGCTAATAAAGTGTGTCCTTTGGAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_053348 ⟹ NP_445800

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	78,082,158 - 78,090,380 (-)	NCBI
Rnor_6.0	11	81,648,890 - 81,657,471 (-)	NCBI
Rnor_5.0	11	84,745,605 - 84,758,630 (-)	NCBI
RGSC_v3.4	11	80,276,852 - 80,285,039 (-)	RGD
Celera	11	76,955,006 - 76,963,228 (-)	NCBI

Sequence:

show sequence

CGGCCTCAGGACCTGGTACTTCAAGTCGTATGCAGCTCTCTGATTGCAATTATAAAACGGCTCA
AGCCAATCTTGAGGCCCCACAGTAGGGCCCGTCCTGTCAGCTCGACCCTGACACGTCCTGGATC
TTGTTCTCCACAGAATGGGTGTGCTACGGCTTCTGGTGCTCTGCACCCTGGCTGCATGCTGTGT
GGCCCGCTCTCCCCCAGCTCCACCCCTGCCAAACGCCCCCTTCGCACCTCTGCGTCCCCTGGGC
TGTAACGACTCTGAAGTGCTGGCAGTTGCAGGTTTTGCCCTGCAGAACATCAACAGAGTCCAAA
AGGATGGCTACATGTTGACCCTCAACAGAGTACACGATGCTCGGGTTCACCGTCAGGAAGACAT
GGGCTCTCTGTTCTACCTCATGCTGGACGTCTTAGAGACTGGCTGCCACGTGCTCAGCAGGAAG
GCACTGAAGGACTGCGGACCGAGGATTTTCTATGAGACTGTTCATGGACAGTGCAAAGCTATGT
TTCACGTTAACAAGCCAAGAAGAGTTCTCTACTTACCTGCTTATAACTGTACACTTCGCCCAGT
TTCTAAAAGGAAGATTCATTCTATGTGCCCTGACTGCCCGCATCCCGTTGACTTGTCAGCCCCC
AGTGTTCTGGAAGCTGCCACAGAATCACTTGCGAAGTTTAACAGCGAGAACCCCTCAAAACAAT
ATGCACTCGTCAAAGTCACCAAGGCTACGACCCAGTGGGTGGTTGGTCCTTCTTACTTTGTGGA
ATATTTGATCAAAGAGTCACCATGTACCCAGTCTCAGGACAGCTGTTCACTCCAGGCCTCCGAC
TCTGAGCCCGTTGGTCTTTGCCAAGGTTCACTGATTAAAAGTCCCGGGGTCCCTCCTCAACGCT
TTAAAAAGACTGTCACTGTGTCGTGCGAGTTTTTCGAATCTCAGGACCAGGTCCCTGGAGGTGA
GAACCCTGCTGATACCCAAGATGCTAAGAAACTCCCTCAGAAAAACACAGCCCCTACCAGCTCA
CCCTCCATAACTGCACCAAGAGGATCTATCCAACACCTCCCTGAGCAGGAGGAGCCTGAAGACT
CCAAGGGAAAGAGTCCTGAGGAACCCTTTCCTGTGCAGCTGGATCTAACCACAAACCCACAGGG
TGACACACTGGATGTCTCCTTCCTCTACCTGGAGCCTGAGGAAAAGAAACTGGTGGTCCTGCCT
TTCCCTGGGAAGGAACAGCGCTCCCCTGAGTGCCCGGGGCCCGAAAAGCAAAGAACCCCCTGAT
GCTCCCCGCTGAGACTCACTAGCAGGGTTCCACGGGGTACGGTCCCCTGCAGTAGATGGGAGGT
GGTGGGCATTGGGAAGGCACAGACAATCAAATGTAGACCGGCTAATAAAGTGTGTCCTTTGGAT
GCTTCTTGATCTCAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001296451	(Get FASTA)	NCBI Sequence Viewer
	NP_445800	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH70508	(Get FASTA)	NCBI Sequence Viewer
	CAB62543	(Get FASTA)	NCBI Sequence Viewer
	EDL78062	(Get FASTA)	NCBI Sequence Viewer
	EDL78063	(Get FASTA)	NCBI Sequence Viewer
	Q9QX79	(Get FASTA)	NCBI Sequence Viewer
	QST77202	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_445800 ⟸ NM_053348
- Peptide Label:	precursor
- UniProtKB:	Q9QX79 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MGVLRLLVLCTLAACCVARSPPAPPLPNAPFAPLRPLGCNDSEVLAVAGFALQNINRVQKDGYM LTLNRVHDARVHRQEDMGSLFYLMLDVLETGCHVLSRKALKDCGPRIFYETVHGQCKAMFHVNK PRRVLYLPAYNCTLRPVSKRKIHSMCPDCPHPVDLSAPSVLEAATESLAKFNSENPSKQYALVK VTKATTQWVVGPSYFVEYLIKESPCTQSQDSCSLQASDSEPVGLCQGSLIKSPGVPPQRFKKTV TVSCEFFESQDQVPGGENPADTQDAKKLPQKNTAPTSSPSITAPRGSIQHLPEQEEPEDSKGKS PEEPFPVQLDLTTNPQGDTLDVSFLYLEPEEKKLVVLPFPGKEQRSPECPGPEKQRTP hide sequence

RefSeq Acc Id:	NP_001296451 ⟸ NM_001309522
- Peptide Label:	isoform 1 precursor
- UniProtKB:	Q6IRS6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MISRFHRCGSVTSSGMGVLRLLVLCTLAACCVARSPPAPPLPNAPFAPLRPLGCNDSEVLAVAG FALQNINRVQKDGYMLTLNRVHDARVHRQEDMGSLFYLMLDVLETGCHVLSRKALKDCGPRIFY ETVHGQCKAMFHVNKPRRVLYLPAYNCTLRPVSKRKIHSMCPDCPHPVDLSAPSVLEAATESLA KFNSENPSKQYALVKVTKATTQWVVGPSYFVEYLIKESPCTQSQDSCSLQASDSEPVGLCQGSL IKSPGVPPQRFKKTVTVSCEFFESQDQVPGGENPADTQDAKKLPQKNTAPTSSPSITAPRGSIQ HLPEQEEPEDSKGKSPEEPFPVQLDLTTNPQGDTLDVSFLYLEPEEKKLVVLPFPGKEQRSPEC PGPEKQRTP hide sequence

RefSeq Acc Id:

ENSRNOP00000051504 ⟸ ENSRNOT00000048739

Protein Domains

Cystatin fetuin-B-type

Transcriptome

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

Promoters

RGD ID:

13698249

Promoter ID:

EPDNEW_R8774

Type:

initiation region

Name:

Fetub_1

Description:

fetuin B

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	11	81,660,207 - 81,660,267	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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:69293	AgrOrtholog
Ensembl Genes	ENSRNOG00000001806	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000051504	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000048739	ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7099154	IMAGE-MGC_LOAD
InterPro	Cystatin_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cystatin_Fetuin_B	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Prot_inh_fetuin_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:83928	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:91528	IMAGE-MGC_LOAD
NCBI Gene	83928	ENTREZGENE
Pfam	Cystatin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Fetub	PhenoGen
PROSITE	CYSTATIN_FETUIN_B	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FETUIN_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FETUIN_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	SM00043	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR	TC218955
UniProt	FETUB_RAT	UniProtKB/Swiss-Prot
	Q6IRS6	ENTREZGENE, UniProtKB/TrEMBL
	Q9QX79	ENTREZGENE
UniProt Secondary	F1LN83	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-10-23	Fetub	fetuin B	Fetub	fetuin beta	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-10-15	Fetub	fetuin beta	Fet_mapped	fetuin phosphoprotein (mapped)	Data Merged	737654	APPROVED
2005-11-17	Fet_mapped	fetuin phosphoprotein (mapped)	Fet	Fetuin (phosphoprotein, 63 kDa)	Symbol and Name updated	1556543	APPROVED
2002-06-10	Fet	Fetuin (phosphoprotein, 63 kDa)			Symbol and Name status set to approved	70586	APPROVED
2002-06-10	Fetub	fetuin beta			Name updated	70584	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_physical_interaction	forms a fetuin-mineral complex with calcium phosphate and matrix Gla protein in vitro	1300185
gene_regulation	down-regulated during experimentally induced inflammation	68778

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

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Imported Disease Annotations - ClinVar

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