Bank1 (B-cell scaffold protein with ankyrin repeats 1)

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Gene: Bank1 (B-cell scaffold protein with ankyrin repeats 1) Rattus norvegicus

Analyze

Symbol:

Bank1

Name:

B-cell scaffold protein with ankyrin repeats 1

RGD ID:

1564639

Description:

Predicted to have protein tyrosine kinase binding activity and signaling receptor binding activity. Predicted to be involved in several processes, including negative regulation of gene expression; positive regulation of peptidyl-tyrosine phosphorylation; and regulation of intracellular signal transduction. Human ortholog(s) of this gene implicated in autoimmune disease (multiple) and systemic scleroderma (multiple). Orthologous to human BANK1 (B cell scaffold protein with ankyrin repeats 1); INTERACTS WITH acetamide; amphetamine; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

B-cell scaffold protein with ankyrin repeats; hypothetical protein LOC365948; LOC365948; LRRGT00104; similar to AVIEF

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	224,530,475 - 224,800,420 (-)	NCBI
Rnor_6.0 Ensembl	2	241,273,763 - 241,545,250 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	241,273,763 - 241,545,527 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	259,830,423 - 260,099,770 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	233,471,600 - 233,747,012 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	2	216,725,955 - 216,996,655 (-)	NCBI		Celera
Cytogenetic Map	2	q43	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autoimmune thyroiditis (ISO)

diffuse scleroderma (ISO)

Hashimoto Disease (ISO)

psoriasis (ISO)

systemic lupus erythematosus (ISO)

systemic scleroderma (ISO)

type 1 diabetes mellitus (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

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

8-Br-cAMP (ISO)

acetamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amphetamine (EXP)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP)

buta-1,3-diene (ISO)

butanal (ISO)

carbon nanotube (ISO)

chloroprene (ISO)

cisplatin (ISO)

copper atom (EXP)

copper(0) (EXP)

copper(II) sulfate (ISO)

dextran sulfate (ISO)

dioxygen (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

ethyl methanesulfonate (ISO)

fonofos (ISO)

formaldehyde (ISO)

lipopolysaccharide (ISO)

mercury atom (ISO)

mercury(0) (ISO)

O-methyleugenol (ISO)

ozone (EXP)

parathion (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

terbufos (ISO)

tetrachloromethane (EXP,ISO)

tetraphene (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triclosan (ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

B cell activation (IBA,ISO)

biological_process (ND)

negative regulation of B cell activation (IBA,ISO)

negative regulation of interleukin-6 production (ISO)

negative regulation of protein kinase B signaling (IBA,ISO)

negative regulation of translational initiation (ISO)

positive regulation of MAPK cascade (ISO)

positive regulation of peptidyl-tyrosine phosphorylation (ISO)

response to bacterium (ISO)

Cellular Component

cellular_component (ND)

Molecular Function

molecular_function (ND)

protein binding (ISO)

protein tyrosine kinase binding (IBA,ISO)

signaling receptor binding (IBA,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.	Kozyrev SV, etal., Nat Genet. 2008 Feb;40(2):211-6. doi: 10.1038/ng.79. Epub 2008 Jan 20.
3.	Muhali FS, etal., Exp Clin Endocrinol Diabetes. 2013 Oct;121(9):556-60. doi: 10.1055/s-0033-1348220. Epub 2013 Oct 14.
4.	OMIM Disease Annotation Pipeline
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
7.	RGD comprehensive gene curation
8.	Rueda B, etal., Ann Rheum Dis. 2010 Apr;69(4):700-5. doi: 10.1136/ard.2009.118174. Epub 2009 Oct 8.
9.	Zhang X, etal., Int J Immunogenet. 2011 Dec;38(6):507-12. doi: 10.1111/j.1744-313X.2011.01045.x. Epub 2011 Oct 12.
10.	Zouidi F, etal., Gene. 2014 Feb 25;536(2):296-301. doi: 10.1016/j.gene.2013.12.008. Epub 2013 Dec 14.

Additional References at PubMed

PMID:11782428	PMID:16546095	PMID:23012479	PMID:24227780

Genomics

Comparative Map Data

Bank1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	2	224,530,475 - 224,800,420 (-)	NCBI
Rnor_6.0 Ensembl	2	241,273,763 - 241,545,250 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	2	241,273,763 - 241,545,527 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	2	259,830,423 - 260,099,770 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	233,471,600 - 233,747,012 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	2	216,725,955 - 216,996,655 (-)	NCBI		Celera
Cytogenetic Map	2	q43	NCBI

BANK1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	4	101,411,286 - 102,074,812 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	4	101,790,482 - 102,074,812 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	4	102,711,887 - 102,995,969 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	102,930,787 - 103,214,992 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	4	103,069,073 - 103,353,073	NCBI
Celera	4	100,010,928 - 100,294,453 (+)	NCBI
Cytogenetic Map	4	q24	NCBI
HuRef	4	98,449,206 - 98,733,393 (+)	NCBI		HuRef
CHM1_1	4	102,688,233 - 102,972,393 (+)	NCBI		CHM1_1

Bank1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	135,759,124 - 136,031,902 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	3	135,759,124 - 136,031,827 (-)	Ensembl
GRCm38	3	136,053,363 - 136,326,141 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	136,053,363 - 136,326,066 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	135,716,327 - 135,989,010 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	3	135,990,753 - 136,263,442 (-)	NCBI			mm8
Celera	3	142,477,189 - 142,751,960 (-)	NCBI		Celera
Cytogenetic Map	3	G3	NCBI
cM Map	3	63.04	NCBI

Bank1
(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_004955496	6,267,551 - 6,470,948 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955496	6,267,618 - 6,511,195 (-)	NCBI	ChiLan1.0	ChiLan1.0

BANK1
(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	4	104,882,347 - 105,172,593 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	104,813,791 - 105,171,527 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	4	94,216,751 - 94,507,965 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

BANK1
(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	32	23,323,122 - 23,602,383 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	32	23,322,654 - 23,603,233 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Bank1
(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_004936520	1,207,078 - 1,284,679 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

BANK1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	8	118,814,053 - 119,157,504 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	8	118,814,352 - 119,114,973 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	128,228,842 - 128,321,122 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

BANK1
(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	7	49,910,851 - 50,205,524 (+)	NCBI
ChlSab1.1 Ensembl	7	49,911,393 - 50,204,476 (+)	Ensembl

Bank1
(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_004624830	5,733,435 - 6,068,349 (-)	NCBI

Position Markers

D2Rat293

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	241,531,986 - 241,532,137	NCBI	Rnor6.0
Rnor_5.0	2	260,086,506 - 260,086,657	UniSTS	Rnor5.0
RGSC_v3.4	2	233,733,748 - 233,733,899	UniSTS	RGSC3.4
RGSC_v3.4	2	233,733,747 - 233,733,899	RGD	RGSC3.4
RGSC_v3.1	2	233,720,487 - 233,720,639	RGD
Celera	2	216,983,391 - 216,983,542	UniSTS
RH 3.4 Map	2	1570.1	RGD
RH 3.4 Map	2	1570.1	UniSTS
RH 2.0 Map	2	1125.8	RGD
SHRSP x BN Map	2	96.5398	RGD
Cytogenetic Map	2	q43	UniSTS

D2Got357

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	241,537,512 - 241,537,783	NCBI	Rnor6.0
Rnor_5.0	2	260,092,032 - 260,092,303	UniSTS	Rnor5.0
RGSC_v3.4	2	233,739,274 - 233,739,545	UniSTS	RGSC3.4
Celera	2	216,988,917 - 216,989,188	UniSTS
Cytogenetic Map	2	q43	UniSTS

RH140009

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	2	241,274,232 - 241,274,426	NCBI	Rnor6.0
Rnor_5.0	2	259,830,892 - 259,831,086	UniSTS	Rnor5.0
RGSC_v3.4	2	233,471,628 - 233,471,822	UniSTS	RGSC3.4
Celera	2	216,726,424 - 216,726,618	UniSTS
RH 3.4 Map	2	1570.4	UniSTS
Cytogenetic Map	2	q43	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
2293833	Kiddil8	Kidney dilation QTL 8	2.9		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	236318496	264899009	Rat
2293844	Kiddil7	Kidney dilation QTL 7	3.5		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	2	236318496	264899009	Rat
1331767	Hrtrt12	Heart rate QTL 12	3.373		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	2	235289967	257110527	Rat
1298075	Scl17	Serum cholesterol level QTL 17	3.4		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	2	228712271	266435125	Rat
1581499	Esta2	Estrogen-induced thymic atrophy QTL 2			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	2	204585642	243689611	Rat
2317885	Alcrsp28	Alcohol response QTL 28	2.1	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	229793522	266435125	Rat
738013	Alc15	Alcohol consumption QTL 15	4.1	0.00022	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	2	199380312	244380312	Rat
631514	Scl8	Serum cholesterol level QTL8	4.4		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	2	231621666	266435125	Rat
1300126	Bp175	Blood pressure QTL 175	3.46		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	229606682	264899009	Rat
1641891	Alcrsp17	Alcohol response QTL 17			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	155965557	254121739	Rat
1598813	Memor9	Memory QTL 9	2.7		exploratory behavior trait (VT:0010471)	average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)	2	214870793	251212353	Rat
1598835	Anxrr18	Anxiety related response QTL 18	2.98		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	2	217743855	262743855	Rat
2301408	Kidm36	Kidney mass QTL 36		0.002	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	205583921	243562243	Rat
2298479	Eau5	Experimental allergic uveoretinitis QTL 5		0.0021	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	2	217498545	254132424	Rat
1354648	Bp239	Blood pressure QTL 239		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	66828236	243550655	Rat
1354649	Kidm17	Kidney mass QTL 17	2.9		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	2	83819608	243901375	Rat
2299161	Iddm33	Insulin dependent diabetes mellitus QTL 33	2.98		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	2	221488355	254121739	Rat
1359019	Hrtrt19	Heart rate QTL 19	2.9		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	2	236318496	243026643	Rat
1549836	Bss2	Bone structure and strength QTL 2	7.5		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	2	228712271	266435125	Rat
2306901	Bp337	Blood pressure QTL 337		0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	177680772	243901375	Rat
2313073	Bmd75	Bone mineral density QTL 75	4.1	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	2	231224020	254132424	Rat
2317752	Glom23	Glomerulus QTL 23	3.6		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	2	208594330	263179188	Rat
61366	Iddm3	Insulin dependent diabetes mellitus QTL 3	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	204585642	249585642	Rat
61398	Bp50	Blood pressure QTL 50	4.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	204585642	249585642	Rat
8693622	Alc26	Alcohol consumption QTL 26	2.4	0.667	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	2	237712398	257579826	Rat
8694435	Bw166	Body weight QTL 166	14.08	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	2	197253963	242253963	Rat
9587428	Epfw6	Epididymal fat weight QTL 6	7.47	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	2	240679103	266435125	Rat
9589044	Scfw1	Subcutaneous fat weight QTL 1	5.8	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	2	197253963	242253963	Rat
8694383	Bw158	Body weight QTL 158	7.69	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	2	197253963	242253963	Rat
7207490	Bss111	Bone structure and strength QTL 111	6.4		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	2	228712271	266435125	Rat
7411555	Bw132	Body weight QTL 132		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	2	240679103	266435125	Rat
8662843	Vetf9	Vascular elastic tissue fragility QTL 9	2.05		thoracic aorta molecular composition trait (VT:0010568)	aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)	2	169852670	243026643	Rat
7207482	Bss107	Bone structure and strength QTL 107	7		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	2	228712271	266435125	Rat
7207484	Bss108	Bone structure and strength QTL 108	5.3		femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	2	228712271	266435125	Rat
8694194	Abfw1	Abdominal fat weight QTL 1	11.7	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	2	197253963	242253963	Rat
8693697	Alc36	Alcohol consumption QTL 36	2	0.592	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	2	233013605	253626471	Rat
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	16679272	245624402	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	91
Count of miRNA genes:	81
Interacting mature miRNAs:	87
Transcripts:	ENSRNOT00000051498, ENSRNOT00000073875
Prediction methods:	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		4		15						1	10
Low		1	39	28	4	28				4	12	1
Below cutoff		22	14	13		13	8	8	29	23	16		8

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001047918	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102804	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102806	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102807	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AY387090	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473952	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230533	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231577	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000079	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000051498 ⟹ ENSRNOP00000040020

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	241,442,228 - 241,472,694 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000073875 ⟹ ENSRNOP00000066483

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	241,273,763 - 241,545,250 (-)	Ensembl

RefSeq Acc Id:

NM_001047918 ⟹ NP_001041383

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	224,530,475 - 224,800,203 (-)	NCBI
Rnor_6.0	2	241,273,763 - 241,545,250 (-)	NCBI
Rnor_5.0	2	259,830,423 - 260,099,770 (-)	NCBI
Celera	2	216,725,955 - 216,996,655 (-)	NCBI

Sequence:

show sequence

ATGCTTCCTGTGGCTTCTGGCACTGGGGGCAGCAGCCCAGATCTCTTCCAGGTTGGCCTAGCGC
CTCCAGGAAATGCAAAAGATATCCTACTGCTCCATGAAGAAGATGCCAAGGAATGGGCTCTATA
CTTGAGAGAAATATTTATACATGTTGTAGAAAGAGAAGAAATCCTGTTATACCCGCTGCACAGT
TTTTCTTTTTCACATTTGGAATCGCTACACTTAAATGCTTACAGATGTAAACTTCTGATATTAT
CTAATAATCTACTTAAAGACCTGACGCCAAAGAAGTGTCAGTTTCTGGAGAAGATACTTCACTC
TATGGGAAGTGTTGTGACTCTGCTTTGTGGGATGGAGAGTTCAGATCCTTTCTATCGCTTACTA
AATATCCCGAGAAAGAGCTGGGAGATCTCAACAGAGCAGGAGCCCGATGACTACCTGTCTGTCA
TCAGACAGATCTTAGACCAAGGTCCTGAAGACTACCTTGAGGTCAGCCTTCCGACAGACTCAAG
AGCAAAATACTCTGAGGACCTACGTGGACAGAAGGGAACTGATGACCTAGCAGCTTTGCGACCA
TCTGTGCCTAGGGTACTAGTGCTTCCTGGGGAAATTTCATGTGAGAGTCCCGGTGAGATATCCA
TTCTGTTGAAAGACGAACTAACTGGTGAAATTCTGGAAGTTGAATTTGCGTCGACCAGCAAGCG
CCTCCGAGCTCGGCCCGCACGCTGGAGTAAGAGTGTCTGGCGTATGAAAGCTGCAGATTTTCCA
GCTGGTTTGGTCACTGTCAATATCTATTGTGATGGAATGATCAAGGCCACAACAGAGATCAAAT
ACTATTCAGCAGCAAAAGCAACAGAAAGTCCATTTAGAGTGTCAGACCCGGACAAGGGTTTGTG
CCAGAAAAGCATCGATGAGCTTGATAATGCTCTTGCATTTGTATTCAAGCATGAAATTCCATAT
TATGAATTCAAACATCTCCAAACTGAAACTCACCTTCAAAAAGAACATACTTACACCACAGAGC
TCCCAACCCTCCTCCACTGTGCAGCAAAGTTCGGCTTACAGAATCTGGCTCTTCATCTTCTGCA
GTGTTCAGGAGCAACCTGGGCAGCTAGGACGAAGTCTACAGATGGTTCAGACCTGCTGCATATT
GCTGAAAGGCATGGTCATGAAGAACTCAAGAAAATCTTTGAAGACTTTCTCAGCCAAAACATTA
GCAGAAATAACGAGCAAGAAAATGACTATGAAGAAGATGGGGTCCCTTTTTCCACATATTCACC
CTCTACGCAGTCTCCAGCGTCTCATCGTGAACCCAGGAAGACACACAGGTGGAGCACAGACAGC
TCTGAGGAGCCTGTGTCAGTGGACACAAAGGACGAATCAGCAAGTGCTGAGGCAAGACACGGCC
TGCCGGAGGTCAGCAGGGAAAGCTCGGAGAACCAGTATGATGATCTCTATGTGTTCATCCCCGG
ATGTGACACCGAAGGCCACACTAAAGAGCCTCTCCCACACTGCAGGCCACCTCTGCCCCCACCA
CGTCCAGGGGCTGCTGCCTCCCAACTAGAAAGACCTCACTTTACCTCACAAGGGAAAGTGTTGG
AAGACCAAATGGAAAAAAGTCAAAACTGGAATGATCTCGGTGCAAGACAAGAGACAAGAGAGGA
ACCCAGCAGAGAAGAAAAGAAGGAAGAAGTACAGAAGGAGGAGGAGGAGGAGGAAAACCCATAC
ACGTTTGCAGAGACCGAAGACAATGAGTATGACCAGATTCTGGCCAGTAAGAGTATAAAGAAAA
GAAGTGGAAATTGGTCTTTCATTGTAAACAGACCACCTGCCCCCACGCCCCGGCCTACTCACAT
CCCTCTCAAAGAAGAAACAACACCTTACATAGCTCAAGTGTTCCAACAAAAGGCAGCCAGAAGA
CAATCTGATGGTGGTGATAAGTGCTACAGTCTCCCTAAGAAACCAGACAAAACTCGGATGGAAG
GCCCAACCTTCCCTACTGCAAGGGGCTACCTGACCACTGGACAGGAAGAACTTATCCTCCTGCA
GGAGAGAGTCAAGAATGGGGAAATGTCTGTGGATGAAGCTCTAGAGAAGTTTAAACACTGGCAG
ATGGGAAAGAGTGGACTGGAAATGATTCAGCAGGAAAAGCTACGCCAACTGCGAGACAACATTA
TTGGGAAAAGGCCAGAAGATGAAAACGCCTATGATAAACTGACCATTGTGCACCATCCGAGTGG
TAATACTGCCCACAATGAAAAAATGCTGTACAACAGCCCCTTCAACAGTAAGTTTCCTGCTCGA
ATCCAAGTTGAAAAGGAATTTGGTTTCTGCTGCAAAAAAGATCATTAAAAAAGACTATTATAAT
CAAACTCAAGAATCTGCAAACATTTTGTATCTAAGTGATTCTGGAATATCTGGTCTCCAGGGCT
AATCCATGTGTACAAGGACACAAGCATGCCTTTGGATTTCAGGATGTGTTAGCACCACAATTTA
TTGGTACTATACCAATTCACATGGATAGCAAAAGATGGAGATTTATAGCTTTCTCTGAAAATCC
ATTCATTTTTTACAACTTTTGCCACTGACACCCCTAGTTTTCTCATCTTGAAAATTAAAGGAAA
AATTCAGCAACATTAAATGCAGTCGAGCAAAATTATGGAACCAAATGGTATAGATTATTCTTCC
CATTCTTCCTTTCTTTCAACTAAGAACTTACTATATATTTGCCTTTTAAATGACAATCTGCTGT
CTGCCTTTCTCACATTTGGGGCCATAATGTTCTTGTGATATCATGTTTTTAGATATTTTATTTA
GTGCCTACTTGCATGTACTTTTGAAATGTACTTTGATTCACATTTTTCCTTAATTGATGATGTT
TTGTGTTTGATGCTAAGAAAGTGCTCTGCCAGTGAACCAGTCTTCAGGCCTCTGCATTGTTTTC
TGAAATCATGCTAGTTTTATTAGTTAATGGTGTGCACGTGGGTATTTCACAACATGGATGCATC
ACACATTGGCTGTGTTCATCCTCTACTCTTCTAGAAGGCCTTTTCCCACTCGGTTCTGTCCCCA
TGTCCTCACTAAATGTCTTTCTCTAAAATTAAAATATATTTTTTGAAAA

hide sequence

RefSeq Acc Id:

XM_017591004 ⟹ XP_017446493

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	224,530,475 - 224,800,420 (-)	NCBI
Rnor_6.0	2	241,273,763 - 241,545,527 (-)	NCBI

Sequence:

show sequence

TGAGCTTAAAGATAGTCTGGGAGAAGAGGGCATCCTATGAGAACCCAAGACTCTGAAACTAAAC
AAGAGCAAGCCCTGGAACAATTTCACTTCCCCCAGCAAAGCCTAGCCCTACCCTTGCGGCCTGA
GCCCAGGGGCTGCATTTCCGGCAACCTCAGGCCGCAGTCCCCAGGGTAGGAAGCAAGCTGCAGG
GCCACCGACCAGCAGAGCTGAAGGTCTGCAGGGGAAGTTGCAGGCAGGGCTGGCCACTGCAGTT
CCCAGGCTCCAACCTCCCGCAATGCTTCCTGTGGCTTCTGGCACTGGGGGCAGCAGCCCAGATC
TCTTCCAGGTTGGCCTAGCGCCTCCAGGAAATGCAAAAGATATCCTACTGCTCCATGAAGAAGA
TGCCAAGGAATGGGCTCTATACTTGAGAGAAATATTTATACATGTTGTAGAAAGAGAAGAAATC
CTGTTATACCCGCTGCACAGTTTTTCTTTTTCACATTTGGAATCGCTACACTTAAATGCTTACA
GATGTAAACTTCTGATATTATCTAATAATCTACTTAAAGACCTGACGCCAAAGAAGTGTCAGTT
TCTGGAGAAGATACTTCACTCTATGGGAAGTGTTGTGACTCTGCTTTGTGGGATGGAGAGTTCA
GATCCTTTCTATCGCTTACTAAATATCCCGAGAAAGAGCTGGGAGATCTCAACAGAGCAGGAGC
CCGATGACTACCTGTCTGTCATCAGACAGATCTTAGACCAAGGTCCTGAAGACTACCTTGAGGT
CAGCCTTCCGACAGACTCAAGAGCAAAATACTCTGAGGACCTACGTGGACAGAAGGGAACTGAT
GACCTAGCAGCTTTGCGACCATCTGTGCCTAGGGTACTAGTGCTTCCTGGGGAAATTTCATGTG
AGAGTCCCGGTGAGATATCCATTCTGTTGAAAGACGAACTAACTGGTGAAATTCTGGAAGTTGA
ATTTGCGTCGACCAGCAAGCGCCTCCGAGCTCGGCCCGCACGCTGGAGTAAGAGTGTCTGGCGT
ATGAAAGCTGCAGATTTTCCAGCTGGTTTGGTCACTGTCAATATCTATTGTGATGGAATGATCA
AGGCCACAACAGAGATCAAATACTATTCAGCAGCAAAAGCAACAGAAAGTCCATTTAGAGTGTC
AGACCCGGACAAGGGTTTGTGCCAGAAAAGCATCGATGAGCTTGATAATGCTCTTGCATTTGTA
TTCAAGCATGAAATTCCATATTATGAATTCAAACATCTCCAAACTGAAACTCACCTTCAAAAAG
AACATACTTACACCACAGAGCTCCCAACCCTCCTCCACTGTGCAGCAAAGTTCGGCTTACAGAA
TCTGGCTCTTCATCTTCTGCAGTGTTCAGGAGCAACCTGGGCAGCTAGGACGAAGTCTACAGAT
GGTTCAGACCTGCTGCATATTGCTGAAAGGCATGGTCATGAAGAACTCAAGAAAATCTTTGAAG
ACTTTCTCAGCCAAAACATTAGCAGAAATAACGAGCAAGAAAATGACTATGAAGAAGATGGGGT
CCCTTTTTCCACATATTCACCCTCAGCTACGCAGTCTCCAGCGTCTCATCGTGAACCCAGGAAG
ACACACAGGTGGAGCACAGACAGCTCTGAGGAGCCTGTGTCAGTGGACACAAAGGACGAATCAG
CAAGTGCTGAGGCAAGACACGGCCTGCCGGAGGTCAGCAGGGAAAGCTCGGAGAACCAGTATGA
TGATCTCTATGTGTTCATCCCCGGATGTGACACCGAAGGCCACACTAAAGAGCCTCTCCCACAC
TGCAGGCCACCTCTGCCCCCACCACGTCCAGGGGCTGCTGCCTCCCAACTAGAAAGACCTCACT
TTACCTCACAAGGGAAAGTGTTGGAAGACCAAATGGAAAAAAGTCAAAACTGGAATGATCTCGG
TGCAAGACAAGAGACAAGAGAGGAACCCAGCAGAGAAGAAAAGAAGGAAGAAGTACAGAAGGAG
GAGGAGGAGGAGGAAAACCCATACACGTTTGCAGAGACCGAAGACAATGAGTATGACCAGATTC
TGGCCAGTAAGAGTATAAAGAAAAGAAGTGGAAATTGGTCTTTCATTGTAAACAGACCACCTGC
CCCCACGCCCCGGCCTACTCACATCCCTCTCAAAGAAGAAACAACACCTTACATAGCTCAAGTG
TTCCAACAAAAGGCAGCCAGAAGACAATCTGATGGTGGTGATAAGTGCTACAGTCTCCCTAAGA
AACCAGACAAAACTCGGATGGAAGGCCCAACCTTCCCTACTGCAAGGGGCTACCTGACCACTGG
ACAGGAAGAACTTATCCTCCTGCAGGAGAGAGTCAAGAATGGGGAAATGTCTGTGGATGAAGCT
CTAGAGAAGTTTAAACACTGGCAGATGGGAAAGAGTGGACTGGAAATGATTCAGCAGGAAAAGC
TACGCCAACTGCGAGACAACATTATTGGGAAAAGGCCAGAAGATGAAAACGCCTATGATAAACT
GACCATTGTGCACCATCCGAGTGGTAATACTGCCCACAATGAAAAAATGCTGTACAACAGCCCC
TTCAACAGTAAGTTTCCTGCTCGAATCCAAGTTGAAAAGGAATTTGGTTTCTGCTGCAAAAAAG
ATCATTAAAAAAGACTATTATAATCAAACTCAAGAATCTGCAAACATTTTGTATCTAAGTGATT
CTGGAATATCTGGTCTCCAGGGCTAATCCATGTGTACAAGGACACAAGCATGCCTTTGGATTTC
AGGATGTGTTAGCACCACAATTTATTGGTACTATACCAATTCACATGGATAGCAAAAGATGGAG
ATTTATAGCTTTCTCTGAAAATCCATTCATTTTTTACAACTTTTGCCACTGACACCCCTAGTTT
TCTCATCTTGAAAATTAAAGGAAAAATTCAGCAACATTAAATGCAGTCGAGCAAAATTATGGAA
CCAAATGGTATAGATTATTCTTCCCATTCTTCCTTTCTTTCAACTAAGAACTTACTATATATTT
GCCTTTTAAATGACAATCTGCTGTCTGCCTTTCTCACATTTGGGGCCATAATGTTCTTGTGATA
TCATGTTTTTAGATATTTTATTTAGTGCCTACTTGCATGTACTTTTGAAATGTACTTTGATTCA
CATTTTTCCTTAATTGATGATGTTTTGTGTTTGATGCTAAGAAAGTGCTCTGCCAGTGAACCAG
TCTTCAGGCCTCTGCATTGTTTTCTGAAATCATGCTAGTTTTATTAGTTAATGGTGTGCACGTG
GGTATTTCACAACATGGATGCATCACACATTGGCTGTGTTCATCCTCTACTCTTCTAGAAGGCC
TTTTCCCACTCGGTTCTGTCCCCATGTCCTCACTAAATGTCTTTCTCTAAAATTAAAATATATT
TTTTGAAAA

hide sequence

RefSeq Acc Id:

XM_039102804 ⟹ XP_038958732

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	224,530,475 - 224,800,420 (-)	NCBI

RefSeq Acc Id:

XM_039102806 ⟹ XP_038958734

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	224,530,475 - 224,800,420 (-)	NCBI

RefSeq Acc Id:

XM_039102807 ⟹ XP_038958735

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	2	224,530,475 - 224,762,106 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001041383	(Get FASTA)	NCBI Sequence Viewer
	XP_017446493	(Get FASTA)	NCBI Sequence Viewer
	XP_038958732	(Get FASTA)	NCBI Sequence Viewer
	XP_038958734	(Get FASTA)	NCBI Sequence Viewer
	XP_038958735	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAQ91060	(Get FASTA)	NCBI Sequence Viewer
	EDL82278	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001041383 ⟸ NM_001047918

- UniProtKB:

M0RAD7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLPVASGTGGSSPDLFQVGLAPPGNAKDILLLHEEDAKEWALYLREIFIHVVEREEILLYPLHS
FSFSHLESLHLNAYRCKLLILSNNLLKDLTPKKCQFLEKILHSMGSVVTLLCGMESSDPFYRLL
NIPRKSWEISTEQEPDDYLSVIRQILDQGPEDYLEVSLPTDSRAKYSEDLRGQKGTDDLAALRP
SVPRVLVLPGEISCESPGEISILLKDELTGEILEVEFASTSKRLRARPARWSKSVWRMKAADFP
AGLVTVNIYCDGMIKATTEIKYYSAAKATESPFRVSDPDKGLCQKSIDELDNALAFVFKHEIPY
YEFKHLQTETHLQKEHTYTTELPTLLHCAAKFGLQNLALHLLQCSGATWAARTKSTDGSDLLHI
AERHGHEELKKIFEDFLSQNISRNNEQENDYEEDGVPFSTYSPSTQSPASHREPRKTHRWSTDS
SEEPVSVDTKDESASAEARHGLPEVSRESSENQYDDLYVFIPGCDTEGHTKEPLPHCRPPLPPP
RPGAAASQLERPHFTSQGKVLEDQMEKSQNWNDLGARQETREEPSREEKKEEVQKEEEEEENPY
TFAETEDNEYDQILASKSIKKRSGNWSFIVNRPPAPTPRPTHIPLKEETTPYIAQVFQQKAARR
QSDGGDKCYSLPKKPDKTRMEGPTFPTARGYLTTGQEELILLQERVKNGEMSVDEALEKFKHWQ
MGKSGLEMIQQEKLRQLRDNIIGKRPEDENAYDKLTIVHHPSGNTAHNEKMLYNSPFNSKFPAR
IQVEKEFGFCCKKDH

hide sequence

RefSeq Acc Id:

XP_017446493 ⟸ XM_017591004

- Peptide Label:

isoform X2

- Sequence:

show sequence

MLPVASGTGGSSPDLFQVGLAPPGNAKDILLLHEEDAKEWALYLREIFIHVVEREEILLYPLHS
FSFSHLESLHLNAYRCKLLILSNNLLKDLTPKKCQFLEKILHSMGSVVTLLCGMESSDPFYRLL
NIPRKSWEISTEQEPDDYLSVIRQILDQGPEDYLEVSLPTDSRAKYSEDLRGQKGTDDLAALRP
SVPRVLVLPGEISCESPGEISILLKDELTGEILEVEFASTSKRLRARPARWSKSVWRMKAADFP
AGLVTVNIYCDGMIKATTEIKYYSAAKATESPFRVSDPDKGLCQKSIDELDNALAFVFKHEIPY
YEFKHLQTETHLQKEHTYTTELPTLLHCAAKFGLQNLALHLLQCSGATWAARTKSTDGSDLLHI
AERHGHEELKKIFEDFLSQNISRNNEQENDYEEDGVPFSTYSPSATQSPASHREPRKTHRWSTD
SSEEPVSVDTKDESASAEARHGLPEVSRESSENQYDDLYVFIPGCDTEGHTKEPLPHCRPPLPP
PRPGAAASQLERPHFTSQGKVLEDQMEKSQNWNDLGARQETREEPSREEKKEEVQKEEEEEENP
YTFAETEDNEYDQILASKSIKKRSGNWSFIVNRPPAPTPRPTHIPLKEETTPYIAQVFQQKAAR
RQSDGGDKCYSLPKKPDKTRMEGPTFPTARGYLTTGQEELILLQERVKNGEMSVDEALEKFKHW
QMGKSGLEMIQQEKLRQLRDNIIGKRPEDENAYDKLTIVHHPSGNTAHNEKMLYNSPFNSKFPA
RIQVEKEFGFCCKKDH

hide sequence

RefSeq Acc Id:

ENSRNOP00000040020 ⟸ ENSRNOT00000051498

RefSeq Acc Id:

ENSRNOP00000066483 ⟸ ENSRNOT00000073875

RefSeq Acc Id:	XP_038958734 ⟸ XM_039102806
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038958732 ⟸ XM_039102804
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038958735 ⟸ XM_039102807
- Peptide Label:	isoform X4

Protein Domains

ANK_REP_REGION DBB

Transcriptome

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

Promoters

RGD ID:

13691774

Promoter ID:

EPDNEW_R2299

Type:

single initiation site

Name:

Bank1_1

Description:

B-cell scaffold protein with ankyrin repeats 1

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	2	241,545,322 - 241,545,382	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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

FHL/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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

FHL/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

GH/OmrMcwi (MCW)

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CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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

MR/N (MCW)

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CSV

TAB

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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
2	259865302	259865303	A	T	snv	ACI/EurMcwi (MCW), ZFDM (KyushuU), GH/OmrMcwi (MCW), COP/CrCrl (MCW & UW), ZF (KyushuU), KFRS3B/Kyo (KyushuU), F344/Jcl (KyushuU), LEC/Tj (KyushuU), HWY/Slc (KyushuU), F344/Stm (KyushuU), F344/NSlc (KyushuU), F344/DuCrlCrlj (KyushuU), LE/OrlBarth (UDEL), MNS/Gib (KNAW), LEW/NCrl (KNAW), LEW/Crl (KNAW), MHS/Gib (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), F344/NRrrc (Illumina) (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW)
2	259865330	259865331	G	T	snv	WKY/NHsd (KNAW), WKY/NCrl (KNAW), WKY/N (KNAW), WKY/Gcrc (KNAW), LE/Stm (Illumina) (KNAW), SHRSP/Gcrc (KNAW), SBH/Ygl (MCW), IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU), LE/Stm (KyushuU), MR/N (KNAW), LE/Stm (SOLiD) (KNAW), SBH/Ygl (KNAW)
2	259883003	259883004	A	T	snv	ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), LL/MavRrrc (KNAW), MHS/Gib (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SBH/Ygl (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (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), GK/Ox (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), IS/Kyo (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), DOB/Oda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), ZFDM (KyushuU)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
2	241308478	241308479	A	T	snv	F344/NRrrc (MCW), ACI/N (MCW), MNS/Gib (RGD), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), WAG/Rij (RGD), ACI/EurMcwi (MCW), LEW/NCrlBR (RGD), LEW/Crl (RGD), F344/NCrl (RGD), ACI/EurMcwi (RGD), MHS/Gib (RGD)
2	241308506	241308507	G	T	snv	CDS, CDR, SBH/Ygl (MCW), WKY/NHsd (RGD), WKY/Gcrc (RGD), WKY/NCrl (RGD), SHRSP/Gcrc (RGD), SBH/Ygl (RGD), LE/Stm (RGD), WKY/N (MCW), MR/N (MCW)
2	241326179	241326180	A	T	snv	FHL/EurMcwi (RGD), Buf/N (MCW), CDR, BBDP/Wor (RGD), FHL/EurMcwi (MCW), F344/NCrl (RGD), FHH/EurMcwi (RGD), GK/Ox (RGD), WKY/NCrl (RGD), LE/Stm (RGD), FHH/EurMcwi (MCW), LEW/Crl (RGD), SBH/Ygl (MCW), LEW/NCrlBR (RGD), LL/MavRrrc (RGD), GH/OmrMcwi (MCW), MHS/Gib (RGD), COP/CrCrl (MCW & UW), MNS/Gib (RGD), SBH/Ygl (RGD), WKY/Gcrc (RGD), SHR/NHsd (RGD), WKY/NHsd (RGD), SHRSP/Gcrc (RGD), WN/N (MCW), WAG/Rij (RGD), WKY/N (MCW), ACI/EurMcwi (MCW), M520/N (MCW), ACI/N (MCW), F344/NRrrc (MCW), ACI/EurMcwi (RGD)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1564639	AgrOrtholog
Ensembl Genes	ENSRNOG00000032247	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000040020	UniProtKB/TrEMBL
	ENSRNOP00000066483	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000051498	UniProtKB/TrEMBL
	ENSRNOT00000073875	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	3.40.50.10140	UniProtKB/TrEMBL
InterPro	Ankyrin_rpt-contain_dom	UniProtKB/TrEMBL
	Ankyrin_rpt-contain_sf	UniProtKB/TrEMBL
	DBB_domain	UniProtKB/TrEMBL
	PIK3AP1_TIR	UniProtKB/TrEMBL
	Toll_tir_struct_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:365948	UniProtKB/TrEMBL
NCBI Gene	365948	ENTREZGENE
Pfam	DBB	UniProtKB/TrEMBL
	TIR_3	UniProtKB/TrEMBL
PhenoGen	Bank1	PhenoGen
PROSITE	ANK_REP_REGION	UniProtKB/TrEMBL
	DBB	UniProtKB/TrEMBL
SMART	DBB	UniProtKB/TrEMBL
Superfamily-SCOP	SSF48403	UniProtKB/TrEMBL
UniProt	M0RAD7	ENTREZGENE, UniProtKB/TrEMBL
	Q6TUE0_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2010-04-20	Bank1	B-cell scaffold protein with ankyrin repeats 1	LOC365948	similar to AVIEF	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC365948	similar to AVIEF			Symbol and Name status set to provisional	70820	PROVISIONAL

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

Imported Disease Annotations - CTD