Bsg (basigin (Ok blood group)) - Rat Genome Database

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

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Gene: Bsg (basigin (Ok blood group)) Rattus norvegicus

Analyze

Symbol:

Bsg

Name:

basigin (Ok blood group)

RGD ID:

2220

Description:

Predicted to have cell-cell adhesion mediator activity; signaling receptor activity; and virus receptor activity. Involved in several processes, including decidualization; embryo implantation; and response to cAMP. Localizes to several cellular components, including membrane raft; mitochondrion; and sarcolemma. Orthologous to human BSG (basigin (Ok blood group)); PARTICIPATES IN syndecan signaling pathway; INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; acrylamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

5A11; basigin; Basigin (Ox47 antigen or CE-9) (EMMPRIN in human) (neurothelin HT7 or 5A11 in avian); basignin; Basignin (Ox47 antigen or CE-9) (EMMPRIN in human) (neurothelin HT7 or 5A11 in avian); CE9; EMMPRIN; glycoprotein CE9; HT7; neurothelin; OX-47 antigen; Ox47R

RGD Orthologs

Human

Mouse

Chinchilla

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):	BSG (basigin (Ok blood group))	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Bsg (basigin)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Bsg (basigin (Ok blood group))	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	BSG (basigin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Bsg (basigin (Ok blood group))	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	BSG (basigin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	BSG (basigin (Ok blood group))	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Bsg (basigin (Ok blood group))	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Bsg (basigin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	BSG (basigin (Ok blood group))	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	bsg (basigin)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Drosophila melanogaster (fruit fly):	Bsg	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	9,993,170 - 10,000,387 (-)	NCBI
Rnor_6.0 Ensembl	7	12,875,537 - 12,882,753 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	12,875,536 - 12,882,753 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	13,044,572 - 13,051,789 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	11,507,914 - 11,515,132 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	11,507,913 - 11,515,056 (-)	NCBI
Celera	7	8,166,570 - 8,173,787 (-)	NCBI		Celera
Cytogenetic Map	7	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amyotrophic lateral sclerosis type 1 (ISO)

breast ductal carcinoma (ISO)

cervical cancer (ISO)

COVID-19 (ISO)

endometrial carcinoma (ISO)

Experimental Neoplasms (ISO)

Female Infertility (ISO)

lung squamous cell carcinoma (ISO)

Lymphatic Metastasis (ISO)

Neoplasm Invasiveness (ISO)

Neoplasm Metastasis (ISO)

ovary serous adenocarcinoma (ISO)

Plaque, Atherosclerotic (ISO)

Plasmodium falciparum malaria (ISO)

Prostatic Neoplasms (ISO)

renal cell carcinoma (ISO)

Reperfusion Injury (IEP)

transitional cell carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (ISO)

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

acrolein (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

aldrin (ISO)

alpha-pinene (ISO)

amiodarone (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

arsenous acid (ISO)

atrazine (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

Brodifacoum (EXP)

butan-1-ol (ISO)

cadmium dichloride (ISO)

cannabidiol (ISO)

carfilzomib (ISO)

chloroethene (ISO)

chloropicrin (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

coumestrol (ISO)

CU-O LINKAGE (ISO)

curcumin (ISO)

cyclophosphamide (ISO)

diarsenic trioxide (ISO)

dibenziodolium (ISO)

dibutyl phthalate (EXP)

diethylstilbestrol (ISO)

diuron (EXP)

doxorubicin (ISO)

Enterolactone (ISO)

enzyme inhibitor (ISO)

ethanol (EXP,ISO)

flavonoids (ISO)

folic acid (ISO)

folpet (ISO)

furan (EXP)

genistein (ISO)

isotretinoin (ISO)

lead diacetate (ISO)

methotrexate (ISO)

microcystin-LR (ISO)

ozone (ISO)

paraquat (ISO)

phorbol 13-acetate 12-myristate (ISO)

pioglitazone (ISO)

pirinixic acid (ISO)

quercetin (ISO)

resveratrol (ISO)

SB 203580 (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

sodium dichromate (ISO)

solasodine (ISO)

testosterone (EXP)

tetrachloromethane (EXP,ISO)

trichloroethene (ISO)

trichostatin A (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axon guidance (IBA)

decidualization (IEP)

dendrite self-avoidance (IBA)

embryo implantation (IEP)

endothelial tube morphogenesis (ISO,ISS)

homophilic cell adhesion via plasma membrane adhesion molecules (IBA)

neural retina development (ISO,ISS)

neutrophil chemotaxis (ISO)

odontogenesis of dentin-containing tooth (IEP)

photoreceptor cell maintenance (ISO,ISS)

positive regulation of endothelial cell migration (ISO,ISS)

positive regulation of interleukin-6 production (ISO)

positive regulation of matrix metallopeptidase secretion (ISO)

positive regulation of vascular endothelial growth factor production (ISO,ISS)

positive regulation of viral entry into host cell (ISO)

protein localization to plasma membrane (IMP,ISO)

response to cAMP (IEP)

response to mercury ion (IEP)

response to peptide hormone (IEP)

spermatogenesis (ISO,ISS)

Cellular Component

acrosomal membrane (ISO)

axon (IBA)

basolateral plasma membrane (IEA)

endoplasmic reticulum membrane (IEA,ISO)

endosome (ISO)

integral component of plasma membrane (IDA)

intracellular membrane-bounded organelle (ISO)

membrane raft (IDA)

mitochondrion (IDA)

photoreceptor inner segment (ISO,ISS)

photoreceptor outer segment (ISO,ISS)

plasma membrane (IBA,ISO,ISS)

sarcolemma (IDA)

Molecular Function

cell-cell adhesion mediator activity (IBA)

mannose binding (IEA)

protein binding (IPI,ISO)

signaling receptor activity (ISO,ISS)

virus receptor activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

syndecan signaling pathway (ISO)

References

References - curated


1.	Als AB, etal., Clin Cancer Res. 2007 Aug 1;13(15 Pt 1):4407-14.
2.	Burggraf D, etal., Eur J Neurosci. 2005 Jul;22(1):273-7.
3.	Fanelli A, etal., Am J Physiol Endocrinol Metab. 2003 Dec;285(6):E1223-9.
4.	Fossum S, etal., Eur J Immunol 1991 Mar;21(3):671-9.
5.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6.	GOA data from the GO Consortium
7.	Hashimoto T, etal., Am J Physiol Endocrinol Metab. 2006 Jun;290(6):E1237-44. Epub 2006 Jan 24.
8.	Jin JS, etal., Int J Gynecol Pathol. 2006 Apr;25(2):140-6.
9.	Ju XZ, etal., Clin Cancer Res. 2008 Jan 15;14(2):494-501.
10.	Kirk P, etal., EMBO J. 2000 Aug 1;19(15):3896-904.
11.	Kuno N, etal., FEBS Lett 1998 Mar 27;425(2):191-4.
12.	MGD data from the GO Consortium
13.	Naruhashi K, etal., Biochem Biophys Res Commun 1997 Jul 30;236(3):733-7.
14.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
15.	Nehme CL, etal., J Cell Biol 1993 Feb;120(3):687-94.
16.	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
17.	Polette M, etal., J Histochem Cytochem. 1997 May;45(5):703-9.
18.	RGD automated import pipeline for gene-chemical interactions
19.	Schwab W, etal., Histochem Cell Biol. 2007 Sep;128(3):195-203. Epub 2007 Aug 8.
20.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
21.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
22.	Tsai WC, etal., World J Urol. 2007 Mar;25(1):73-80. Epub 2006 Sep 23.
23.	Ueda K, etal., Oncol Rep. 2007 Apr;17(4):731-5.
24.	Wang L, etal., Cancer Biol Ther. 2006 Jun;5(6):608-14. Epub 2006 Jun 5.
25.	Wilson MC, etal., J Biol Chem. 2002 Feb 1;277(5):3666-72. Epub 2001 Nov 21.
26.	Wilson MC, etal., J Biol Chem. 2005 Jul 22;280(29):27213-21. Epub 2005 May 24.
27.	Xiao LJ, etal., Reproduction. 2002 Aug;124(2):219-25.
28.	Zhou S, etal., Ai Zheng. 2005 Jul;24(7):874-9.

Additional References at PubMed

PMID:8889548	PMID:12939332	PMID:14645104	PMID:15215314	PMID:15758150	PMID:15946952	PMID:16733664	PMID:16791210	PMID:17869266	PMID:18000599	PMID:18243135	PMID:18769934
PMID:19144954	PMID:19946888	PMID:20369476	PMID:20458337	PMID:20833797	PMID:21423176	PMID:21448785	PMID:21620857	PMID:22139963	PMID:22379341	PMID:23376485	PMID:23404084
PMID:23525302	PMID:23856290	PMID:24968091	PMID:25468996	PMID:26195724	PMID:26261551	PMID:26316108	PMID:26697232	PMID:28716558	PMID:29914983	PMID:30446621

Genomics

Comparative Map Data

Bsg
(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	9,993,170 - 10,000,387 (-)	NCBI
Rnor_6.0 Ensembl	7	12,875,537 - 12,882,753 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	7	12,875,536 - 12,882,753 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	7	13,044,572 - 13,051,789 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	11,507,914 - 11,515,132 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	11,507,913 - 11,515,056 (-)	NCBI
Celera	7	8,166,570 - 8,173,787 (-)	NCBI		Celera
Cytogenetic Map	7	q11	NCBI

BSG
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	19	571,277 - 583,493 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38.p13 Ensembl	19	571,277 - 583,494 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	19	571,283 - 583,493 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	19	571,283 - 583,493 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	522,325 - 534,493 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	19	522,324 - 534,492	NCBI
Celera	19	234,501 - 246,669 (-)	NCBI
Cytogenetic Map	19	p13.3	NCBI
HuRef	19	342,018 - 354,031 (+)	NCBI		HuRef
CHM1_1	19	570,866 - 583,082 (+)	NCBI		CHM1_1

Bsg
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	79,540,192 - 79,547,813 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	10	79,540,325 - 79,547,803 (+)	Ensembl
GRCm38	10	79,704,358 - 79,711,979 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	79,704,491 - 79,711,969 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	79,167,103 - 79,174,724 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	10	79,107,629 - 79,115,022 (+)	NCBI			mm8
Celera	10	80,718,673 - 80,726,294 (+)	NCBI		Celera
Cytogenetic Map	10	C1	NCBI
cM Map	10	39.72	NCBI

Bsg
(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	NW_004955495	7,148,806 - 7,156,296 (-)	NCBI	ChiLan1.0	ChiLan1.0

BSG
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	57,942,703 - 57,951,089 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	57,943,276 - 57,951,061 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	57,745,480 - 57,753,845 (-)	NCBI
ROS_Cfam_1.0	20	58,686,165 - 58,694,560 (-)	NCBI
UMICH_Zoey_3.1	20	57,739,806 - 57,748,184 (-)	NCBI
UNSW_CanFamBas_1.0	20	58,219,731 - 58,228,095 (-)	NCBI
UU_Cfam_GSD_1.0	20	58,422,924 - 58,431,329 (-)	NCBI

Bsg
(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_024405118	217,644,988 - 217,653,120 (-)	NCBI
SpeTri2.0	NW_004936588	181,688 - 189,795 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

BSG
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	2	77,735,586 - 77,743,451 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

BSG
(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	6	309,579 - 320,209 (+)	NCBI
ChlSab1.1 Ensembl	6	309,506 - 321,785 (+)	Ensembl

Bsg
(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_004624828	7,913,297 - 7,920,891 (-)	NCBI

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
2298550	Neuinf6	Neuroinflammation QTL 6	3.3		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	7	1	34147172	Rat
9590142	Scort5	Serum corticosterone level QTL 5	24.4	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	1	34828535	Rat
7411566	Bw136	Body weight QTL 136	10.4	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	7	1	34828535	Rat
724560	Plsm3	Polydactyly-luxate syndrome (PLS) morphotypes QTL 3		0.0003	tibia length (VT:0004357)	tibia length (CMO:0000450)	7	1	37009673	Rat
2317047	Wbc4	White blood cell count QTL 4		0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	7	1	38119654	Rat
1300176	Hrtrt10	Heart rate QTL 10	3.19		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	7	2653138	32258115	Rat
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
61410	Bw19	Body weight QTL 19	6.2	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	7	5911477	50911477	Rat
631503	Bp102	Blood pressure QTL 102	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	5951969	50951969	Rat
10755438	Coatc9	Coat color QTL 9		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	9758045	54758045	Rat
9590102	Sffal5	Serum free fatty acids level QTL 5	8.62	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	7	11647102	56647102	Rat
2298547	Neuinf5	Neuroinflammation QTL 5	3.7		nervous system integrity trait (VT:0010566)	spinal cord Cd74 protein level (CMO:0002131)	7	12328467	67193263	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	12328467	106995532	Rat
1578652	Bmd15	Bone mineral density QTL 15	5.2		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	7	12687850	67801690	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	295
Count of miRNA genes:	142
Interacting mature miRNAs:	160
Transcripts:	ENSRNOT00000011275, ENSRNOT00000044275
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	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109882	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_012783	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC097878	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY120888	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC059145	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BQ199464	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474029	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CV119278	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212571	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212582	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212838	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213065	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213626	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214193	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214232	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214473	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216479	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218399	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219910	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220920	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224837	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227451	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229144	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229755	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231850	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ232262	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234420	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234809	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234829	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X54640	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X67215	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000011275 ⟹ ENSRNOP00000011275

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	12,875,537 - 12,882,753 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000044275 ⟹ ENSRNOP00000050252

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	12,875,537 - 12,882,753 (-)	Ensembl

RefSeq Acc Id:

NM_001109882 ⟹ NP_001103352

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	9,993,170 - 10,000,387 (-)	NCBI
Rnor_6.0	7	12,875,536 - 12,882,753 (-)	NCBI
Rnor_5.0	7	13,044,572 - 13,051,789 (-)	NCBI
RGSC_v3.4	7	11,507,914 - 11,515,132 (-)	RGD
Celera	7	8,166,570 - 8,173,787 (-)	RGD

Sequence:

show sequence

CCGCCCCGCGACGCCGCGTGCGTACGTGCTGCGTGCGCGCGCCCCACCCTTCTTATAGAGCCGC
AGTGGGGCTGCTCTTGGACGAGGCGACATGGCGGCGGCGCTGCTGCTGGCGCTGGCCTTCACGT
TCCTGAGTGGCCAAGGCGCCTGCGCGGCGGCTGGCTTTCTCAAGGCGCCAATGTCCCAGGAGCA
GTGGGCGGGGGGCAGCGTGGTCCTGCACTGTGAGGCTGTGGGCAGCCCCATGCCGGAGATCCAG
TGGTGGTTTGAAGGGAATGAACCAAACGACAGCTGCTCCCAGCTCTGGGATGGCGCCCGGCTGG
ACCGTGTTCACATCCATGCCACCTACCGCCAGCATGCAGCCAGCACGCTGTCTGTTGATGGGCT
CGCCGCAGAGGACACAGGCACTTATGAATGCCGGGCCAGCAGTGACCCTGACCGCAACCACCTG
ACCCGGCCACCCAGGGTCAAGTGGGTTCGTGCCCAGGCGAGCGTGGTGGTCCTTGAACCGGGCA
CCATCGTAACCTCTGTCCAGGAAGTTGACTCCAAGACACAGCTTACCTGCTTTTTGAACAGCAG
TGGCATTGACATCGTTGGCCACCGCTGGATGAGAGGTGGCAAGGTACTGCAGGAAGACACGCTG
CCCGATCTACAGATGAAGTACACGGTGGATGCAGATGACCGCTCTGGAGAATATTCCTGCATCT
TCCTTCCTGAGCCTGTGGGCAGAGGCAACATCAATGTGGAGGGGCCACCCAGGATCAAGGTGGG
AAAGAAATCGGAACACGCCAGTGAGGGAGAGTTTGTGAAGCTGATCTGCAAGTCTGAGGCGTCC
CACCCTCCTGTGGATGAGTGGGTCTGGTTTAAGACCTCTGACACTGGGGACCAGACTATCTCCA
ACGGCACTGAGGCCAATAGCAAGTACGTCATTATATCCACGCCTGAGCTGTCAGAGCTGATCAT
CAGCGACCTGGACATGAACGTGGACCCTGGCACCTACGTGTGCAATGCCACCAACTCCCAGGGC
AGTGCTCGGGAGACCATCTCACTGCGTGTGCGCAGCCGCCTGGCAGCCCTCTGGCCCTTCCTGG
GCATTGTGGCCGAGGTCCTGGTGTTGGTCACCATCATCTTCATCTACGAGAAGAGGCGGAAGCC
GGACCAGACCCTGGACGAGGATGATCCTGGCGCCGCCCCACTGAAGGGCAGCGGGTCTCACCTG
AATGACAAGGACAAGAATGTGCGCCAGAGGAACGCCACCTGAGCGGCGGGGCAGGCGGGGAGGG
GAGGTGCCAGGGCACTTGACCCCAGCCCAGCGTCTGCCTCCACTCCTGTGTCCCATCCTGTCCC
GACCTGAGCCTGCCCAACCCAACTTCTTATCCCAGCCCAAGTGAAGACAGAGCCTTACCTTACA
GAAAACCCATCTGGGAGAAGCAGGCCACTTGCAGTACCCCTGTTTCTAGTTTAAACTGAATGAG
GTTTCTATGCAGACAATCCATTCCTTAGGGCTACGTTTTTATTTTCCTTCCCTTCTGAAGTATG
TCACTACAGCCCTGTGGAGTGGGGGAGTGGGGTCATGAGGGAAAGGCCAGGGCACACATGCTCT
GACTTTACCCTGTTGGAGGGGGCTGGGCCTGCTGGGACCCCACAAATAAAGACCTACACCACCA
AAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_012783 ⟹ NP_036915

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	9,993,170 - 10,000,387 (-)	NCBI
Rnor_6.0	7	12,875,536 - 12,882,753 (-)	NCBI
Rnor_5.0	7	13,044,572 - 13,051,789 (-)	NCBI
RGSC_v3.4	7	11,507,914 - 11,515,132 (-)	RGD
Celera	7	8,166,570 - 8,173,787 (-)	RGD

Sequence:

show sequence

CCGCCCCGCGACGCCGCGTGCGTACGTGCTGCGTGCGCGCGCCCCACCCTTCTTATAGAGCCGC
AGTGGGGCTGCTCTTGGACGAGGCGACATGGCGGCGGCGCTGCTGCTGGCGCTGGCCTTCACGT
TCCTGAGTGGCCAAGGCGCCTGCGCGGCGGCGGGCACCATCGTAACCTCTGTCCAGGAAGTTGA
CTCCAAGACACAGCTTACCTGCTTTTTGAACAGCAGTGGCATTGACATCGTTGGCCACCGCTGG
ATGAGAGGTGGCAAGGTACTGCAGGAAGACACGCTGCCCGATCTACAGATGAAGTACACGGTGG
ATGCAGATGACCGCTCTGGAGAATATTCCTGCATCTTCCTTCCTGAGCCTGTGGGCAGAGGCAA
CATCAATGTGGAGGGGCCACCCAGGATCAAGGTGGGAAAGAAATCGGAACACGCCAGTGAGGGA
GAGTTTGTGAAGCTGATCTGCAAGTCTGAGGCGTCCCACCCTCCTGTGGATGAGTGGGTCTGGT
TTAAGACCTCTGACACTGGGGACCAGACTATCTCCAACGGCACTGAGGCCAATAGCAAGTACGT
CATTATATCCACGCCTGAGCTGTCAGAGCTGATCATCAGCGACCTGGACATGAACGTGGACCCT
GGCACCTACGTGTGCAATGCCACCAACTCCCAGGGCAGTGCTCGGGAGACCATCTCACTGCGTG
TGCGCAGCCGCCTGGCAGCCCTCTGGCCCTTCCTGGGCATTGTGGCCGAGGTCCTGGTGTTGGT
CACCATCATCTTCATCTACGAGAAGAGGCGGAAGCCGGACCAGACCCTGGACGAGGATGATCCT
GGCGCCGCCCCACTGAAGGGCAGCGGGTCTCACCTGAATGACAAGGACAAGAATGTGCGCCAGA
GGAACGCCACCTGAGCGGCGGGGCAGGCGGGGAGGGGAGGTGCCAGGGCACTTGACCCCAGCCC
AGCGTCTGCCTCCACTCCTGTGTCCCATCCTGTCCCGACCTGAGCCTGCCCAACCCAACTTCTT
ATCCCAGCCCAAGTGAAGACAGAGCCTTACCTTACAGAAAACCCATCTGGGAGAAGCAGGCCAC
TTGCAGTACCCCTGTTTCTAGTTTAAACTGAATGAGGTTTCTATGCAGACAATCCATTCCTTAG
GGCTACGTTTTTATTTTCCTTCCCTTCTGAAGTATGTCACTACAGCCCTGTGGAGTGGGGGAGT
GGGGTCATGAGGGAAAGGCCAGGGCACACATGCTCTGACTTTACCCTGTTGGAGGGGGCTGGGC
CTGCTGGGACCCCACAAATAAAGACCTACACCACCAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001103352	(Get FASTA)	NCBI Sequence Viewer
	NP_036915	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH59145	(Get FASTA)	NCBI Sequence Viewer
	AAM81604	(Get FASTA)	NCBI Sequence Viewer
	CAA38452	(Get FASTA)	NCBI Sequence Viewer
	CAA47655	(Get FASTA)	NCBI Sequence Viewer
	EDL89403	(Get FASTA)	NCBI Sequence Viewer
	EDL89404	(Get FASTA)	NCBI Sequence Viewer
	EDL89405	(Get FASTA)	NCBI Sequence Viewer
	EDL89406	(Get FASTA)	NCBI Sequence Viewer
	P26453	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_036915 ⟸ NM_012783
- Peptide Label:	isoform 2 precursor
- UniProtKB:	P26453 (UniProtKB/Swiss-Prot), Q6GT74 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAAALLLALAFTFLSGQGACAAAGTIVTSVQEVDSKTQLTCFLNSSGIDIVGHRWMRGGKVLQE DTLPDLQMKYTVDADDRSGEYSCIFLPEPVGRGNINVEGPPRIKVGKKSEHASEGEFVKLICKS EASHPPVDEWVWFKTSDTGDQTISNGTEANSKYVIISTPELSELIISDLDMNVDPGTYVCNATN SQGSARETISLRVRSRLAALWPFLGIVAEVLVLVTIIFIYEKRRKPDQTLDEDDPGAAPLKGSG SHLNDKDKNVRQRNAT hide sequence

RefSeq Acc Id:	NP_001103352 ⟸ NM_001109882
- Peptide Label:	isoform 1 precursor
- UniProtKB:	P26453 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MAAALLLALAFTFLSGQGACAAAGFLKAPMSQEQWAGGSVVLHCEAVGSPMPEIQWWFEGNEPN DSCSQLWDGARLDRVHIHATYRQHAASTLSVDGLAAEDTGTYECRASSDPDRNHLTRPPRVKWV RAQASVVVLEPGTIVTSVQEVDSKTQLTCFLNSSGIDIVGHRWMRGGKVLQEDTLPDLQMKYTV DADDRSGEYSCIFLPEPVGRGNINVEGPPRIKVGKKSEHASEGEFVKLICKSEASHPPVDEWVW FKTSDTGDQTISNGTEANSKYVIISTPELSELIISDLDMNVDPGTYVCNATNSQGSARETISLR VRSRLAALWPFLGIVAEVLVLVTIIFIYEKRRKPDQTLDEDDPGAAPLKGSGSHLNDKDKNVRQ RNAT hide sequence

RefSeq Acc Id:

ENSRNOP00000050252 ⟸ ENSRNOT00000044275

RefSeq Acc Id:

ENSRNOP00000011275 ⟸ ENSRNOT00000011275

Protein Domains

Ig-like Ig-like C2-type Ig-like V-type

Transcriptome

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

Promoters

RGD ID:

13695055

Promoter ID:

EPDNEW_R5579

Type:

initiation region

Name:

Bsg_1

Description:

basigin

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	12,882,673 - 12,882,733	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:2220	AgrOrtholog
Ensembl Genes	ENSRNOG00000008414	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000011275	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000050252	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000011275	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000044275	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	2.60.40.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:6889785	IMAGE-MGC_LOAD
InterPro	Basigin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Basigin-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ig-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ig-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ig_sub	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Ig_sub2	UniProtKB/Swiss-Prot
KEGG Report	rno:25246	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:72895	IMAGE-MGC_LOAD
NCBI Gene	25246	ENTREZGENE
PANTHER	PTHR10075	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR10075:SF12	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Bsg	PhenoGen
PROSITE	IG_LIKE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	IGc2	UniProtKB/Swiss-Prot
	SM00409	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF48726	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR	TC204379
UniProt	BASI_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
	Q6GT74	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	Q7TNP1	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-05-06	Bsg	basigin (Ok blood group)	Bsg	basigin (Ok blood group)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2019-04-10	Bsg	basigin (Ok blood group)	Bsg	basigin	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-11-11	Bsg	basigin	Bsg	basigin (Ok blood group)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-01-14	Bsg	basigin (Ok blood group)	Bsg	basigin	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2002-06-10	Bsg	basigin			Symbol and Name status set to approved	70586	APPROVED
2001-12-21	Bsg	Basignin			Name withdrawn	61478	WITHDRAWN
2001-12-21	Bsg	basigin			Name updated	61478	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	localizes to the plasma membrane	69779
gene_cellular_localization	localizes to the anterior-tail plasma membrane domain of the spermatozoon	69778
gene_domains	contains one transmembrane domain, a cytoplasmic domain and an extracellular domain with two immunoglobulin-like domains	69779
gene_expression	expressed in various immature cells, endothelia and cells with excitable membranes	69779
gene_expression	expressed in spermatozoon	69778
gene_product	member of the immunoglobulin superfamily	69779

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 - CTD

Imported Annotations - PID (archival)

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Imported Disease Annotations - CTD

Imported Annotations - PID (archival)