Slc10a6 (solute carrier family 10 member 6)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Slc10a6 (solute carrier family 10 member 6) Rattus norvegicus

Analyze

Symbol:

Slc10a6

Name:

solute carrier family 10 member 6

RGD ID:

727800

Description:

Exhibits sodium-dependent organic anion transmembrane transporter activity. Involved in sodium-dependent organic anion transport. Predicted to localize to integral component of membrane and plasma membrane. Orthologous to human SLC10A6 (solute carrier family 10 member 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

Soat; sodium-dependent organic anion transporter; solute carrier family 10 (sodium/bile acid cotransporter family), member 6; solute carrier family 10 (sodium/bile acid cotransporter), member 6

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
Rnor_6.0	14	7,618,022 - 7,682,377 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	7,618,022 - 7,682,377 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	7,592,605 - 7,656,400 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	7,270,695 - 7,292,036 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	14	7,270,694 - 7,292,036 (+)	NCBI
Celera	14	6,219,788 - 6,240,844 (+)	NCBI		Celera
Cytogenetic Map	14	p22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Breast Neoplasms (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

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

4-hydroxyphenyl retinamide (ISO)

aflatoxin B1 (ISO)

amphetamine (EXP)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

Benzo[k]fluoranthene (ISO)

bisphenol A (EXP)

bromobenzene (EXP)

buta-1,3-diene (ISO)

cadmium dichloride (EXP)

carbon nanotube (ISO)

chloroprene (ISO)

clobetasol (ISO)

daidzein (ISO)

dehydroepiandrosterone sulfate (ISO)

dexamethasone (ISO)

dextran sulfate (ISO)

diclofenac (ISO)

doxorubicin (ISO)

endosulfan (EXP)

estrone 3-sulfate (ISO)

Genipin (ISO)

genistein (ISO)

Indeno[1,2,3-cd]pyrene (ISO)

isoprenaline (ISO)

lipopolysaccharide (ISO)

paracetamol (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

pregnenolone sulfate (ISO)

sodium atom (ISO)

sulforaphane (ISO)

tamoxifen (ISO)

titanium dioxide (ISO)

tremolite asbestos (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

bile acid and bile salt transport (IBA)

sodium ion transport (IEA)

sodium-dependent organic anion transport (IDA)

transmembrane transport (IEA)

Cellular Component

integral component of membrane (IEA)

plasma membrane (IEA)

Molecular Function

bile acid:sodium symporter activity (IBA)

protein binding (ISO)

sodium-dependent organic anion transmembrane transporter activity (IDA)

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.	Geyer J, etal., Biochem Biophys Res Commun 2004 Apr 2;316(2):300-6.
3.	MGD data from the GO Consortium
4.	NCBI rat LocusLink and RefSeq merged data October 15, 2003
5.	RGD automated data pipeline
6.	RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data

Slc10a6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	14	7,618,022 - 7,682,377 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	7,618,022 - 7,682,377 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	7,592,605 - 7,656,400 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	7,270,695 - 7,292,036 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	14	7,270,694 - 7,292,036 (+)	NCBI
Celera	14	6,219,788 - 6,240,844 (+)	NCBI		Celera
Cytogenetic Map	14	p22	NCBI

SLC10A6
(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	86,823,468 - 86,849,384 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	4	86,823,468 - 86,849,384 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	4	87,744,477 - 87,770,416 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	87,963,865 - 87,989,292 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	4	85,034,180 - 85,059,864 (-)	NCBI
Cytogenetic Map	4	q21.3	NCBI
HuRef	4	83,489,562 - 83,515,298 (-)	NCBI		HuRef
CHM1_1	4	87,721,091 - 87,746,835 (-)	NCBI		CHM1_1

Slc10a6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	103,753,577 - 103,777,269 (-)	NCBI	GRCm39		mm39
GRCm38	5	103,605,711 - 103,629,403 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	103,605,711 - 103,629,403 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	104,034,730 - 104,058,422 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	5	103,846,013 - 103,869,705 (-)	NCBI			mm8
Celera	5	100,917,865 - 100,940,762 (-)	NCBI		Celera
Cytogenetic Map	5	E5	NCBI

Slc10a6
(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_004955474	2,951,052 - 2,980,980 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955474	2,949,773 - 2,982,458 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLC10A6
(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	89,855,914 - 89,881,523 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	89,855,914 - 89,881,523 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	4	79,126,941 - 79,152,786 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

SLC10A6
(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	10,279,831 - 10,386,298 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	32	10,334,148 - 10,362,302 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Slc10a6
(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_004936920	285,185 - 310,395 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC10A6
(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	131,969,291 - 132,021,981 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	8	131,997,359 - 132,023,739 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	141,308,101 - 141,336,069 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC10A6
(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 Ensembl	7	35,203,853 - 35,229,199 (-)	Ensembl
ChlSab1.1	7	35,203,853 - 35,230,698 (-)	NCBI

Slc10a6
(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_004624872	3,411,860 - 3,438,525 (-)	NCBI

Position Markers

AU047970

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	14	7,640,891 - 7,641,033	NCBI	Rnor6.0
Rnor_6.0	14	7,653,017 - 7,653,159	NCBI	Rnor6.0
Rnor_5.0	14	7,627,386 - 7,627,528	UniSTS	Rnor5.0
Rnor_5.0	14	7,615,260 - 7,615,402	UniSTS	Rnor5.0
RGSC_v3.4	14	7,234,364 - 7,234,506	UniSTS	RGSC3.4
Celera	14	6,209,620 - 6,209,762	UniSTS
Cytogenetic Map	14	p22	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
2300159	Bmd61	Bone mineral density QTL 61	5.3	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	14	1	27597761	Rat
2300183	Bmd60	Bone mineral density QTL 60	5.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	14	1	27597761	Rat
619619	Rf4	Renal disease susceptibility QTL 4	4.1	0.002	total urine protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	14	1	34403399	Rat
9589814	Gluco67	Glucose level QTL 67	4.54	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	14	1	41333960	Rat
7411573	Bw139	Body weight QTL 139	4.7	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	14	1	41333960	Rat
634352	Apr6	Acute phase response QTL 6	3.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	14	1	42766285	Rat
71115	Niddm15	Non-insulin dependent diabetes mellitus QTL 15	4.8		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	14	2227825	12680613	Rat
70204	Niddm20	Non-insulin dependent diabetes mellitus QTL 20	5.1	0.000008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	2227825	19230541	Rat
724541	Niddm53	Non-insulin dependent diabetes mellitus QTL 53		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	4833233	10729268	Rat
2293089	Iddm31	Insulin dependent diabetes mellitus QTL 31	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	4833233	19909932	Rat
2293089	Iddm31	Insulin dependent diabetes mellitus QTL 31	4.7		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	14	4833233	19909932	Rat
1300114	Srn2	Serum renin concentration QTL 2	3.27		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	14	4833233	23004027	Rat
70195	Mcs8	Mammary carcinoma susceptibility QTL 8	4.28		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	14	4833233	26466248	Rat
1331740	Bw26	Body weight QTL 26	3.028		body mass (VT:0001259)	body weight (CMO:0000012)	14	4833233	33040042	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	105
Count of miRNA genes:	95
Interacting mature miRNAs:	97
Transcripts:	ENSRNOT00000002819
Prediction methods:	Microtar, Miranda, Rnahybrid
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						3	2
Low	3	31	42	26	17	26	8	11	59	29	30	9	8
Below cutoff		12	11	11		11			11	6	7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_198049	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07014295	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AABR07014296	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AABR07014297	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AABR07014298	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01077943	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01077944	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AJ583503	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474022	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000002819 ⟹ ENSRNOP00000002819

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	14	7,618,022 - 7,682,377 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000088508 ⟹ ENSRNOP00000072386

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	14	7,618,022 - 7,682,374 (+)	Ensembl

RefSeq Acc Id:

NM_198049 ⟹ NP_932166

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	14	7,618,022 - 7,682,377 (+)	NCBI
Rnor_5.0	14	7,592,605 - 7,656,400 (+)	NCBI
RGSC_v3.4	14	7,270,695 - 7,292,036 (+)	RGD
Celera	14	6,219,788 - 6,240,844 (+)	RGD

Sequence:

show sequence

ATGAGCGCAGACTGCGAGGGCAACTCCACCTGCCCTGCCAACAGCACGGAGGAAGACCCACCCG
TGGGAATGGAGGGACAGGGGAGCCTGAAGCTTGTTTTCACAGTCCTGTCGGCTGTGATGGTGGG
TCTGGTCATGTTCTCCTTTGGATGTTCAGTGGAGAGTCGGAAGCTCTGGCTGCACCTCAGAAGA
CCCTGGGGCATCGCAGTGGGCCTGCTTTGCCAGTTTGGGCTCATGCCTCTGACAGCTTATCTGC
TAGCCATTGGCTTCGGTCTGAAACCATTCCAAGCTATTGCCGTCCTCATCATGGGGAGCTGCCC
TGGGGGCACCGTCTCTAATGTCCTCACCTTCTGGGTTGATGGAGATATGGACCTCAGCATCAGC
ATGACGACCTGCTCCACAGTGGCTGCTCTGGGAATGATGCCCCTCTGCCTCTACGTCTACACCC
GGTCCTGGACTCTTCCACAGAGCCTCACCATCCCGTACCAGAGCATAGGAATTACCCTTGTGTC
CCTGGTTGTTCCTGTGGCCTCCGGCATCTATGTGAATTATAGGTGGCCAAAGCAAGCAACATTC
ATTCTCAAGGTCGGGGCTGCTGTTGGCGGCATGCTCCTCCTGGTGGTGGCAGTTACCGGCGTGG
TCCTGGCAAAGGGCTGGAACATAGATGTCACTCTTCTGGTCATCAGCTGTATTTTTCCCTTGGT
CGGCCATGTCATGGGCTTCCTGCTGGCGTTCCTCACCCACCAGTCTTGGCAAAGGTGCAGGACG
ATTTCCATAGAGACCGGAGCACAGAACATCCAGCTGTGCATTGCCATGATGCAGCTGTCCTTCT
CTGCTGAGTACCTGGTCCAGCTGTTAAACTTCGCCCTGGCCTACGGACTCTTCCAAGTGCTGCA
CGGGCTGCTCATTGTCGCAGCATATCAGGCATACAAGAGGAGGCAGAAGAGTCAATACAGGAGA
CAGCACCCGGAGTGCCAAGACATCAGCTCTGAGAAGCAGCCCAGAGAGACCAGTGCCTTCTTGG
ATAAAGGGGCTGAGGCTGCTGTAACTCTGGGGCTAGAGCAGCACCACAGGACCGCTGAACTGAC
CAGTCACGTTCCTTCATGTGAATAG

hide sequence

Protein Sequences


Protein RefSeqs	NP_932166	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CAE47478	(Get FASTA)	NCBI Sequence Viewer
	EDL99520	(Get FASTA)	NCBI Sequence Viewer
	Q70EX6	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_932166 ⟸ NM_198049

- UniProtKB:

Q70EX6 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MSADCEGNSTCPANSTEEDPPVGMEGQGSLKLVFTVLSAVMVGLVMFSFGCSVESRKLWLHLRR
PWGIAVGLLCQFGLMPLTAYLLAIGFGLKPFQAIAVLIMGSCPGGTVSNVLTFWVDGDMDLSIS
MTTCSTVAALGMMPLCLYVYTRSWTLPQSLTIPYQSIGITLVSLVVPVASGIYVNYRWPKQATF
ILKVGAAVGGMLLLVVAVTGVVLAKGWNIDVTLLVISCIFPLVGHVMGFLLAFLTHQSWQRCRT
ISIETGAQNIQLCIAMMQLSFSAEYLVQLLNFALAYGLFQVLHGLLIVAAYQAYKRRQKSQYRR
QHPECQDISSEKQPRETSAFLDKGAEAAVTLGLEQHHRTAELTSHVPSCE

hide sequence

RefSeq Acc Id:

ENSRNOP00000002819 ⟸ ENSRNOT00000002819

RefSeq Acc Id:

ENSRNOP00000072386 ⟸ ENSRNOT00000088508

Transcriptome

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

Promoters

RGD ID:

13699180

Promoter ID:

EPDNEW_R9705

Type:

initiation region

Name:

Slc10a6_1

Description:

solute carrier family 10 member 6

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	14	7,617,968 - 7,618,028	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/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)

ACI/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

ACI/N (MCW)

Visual

CSV

TAB

Printer

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

BBDP/Wor (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

BN/SsN (MCW)

Visual

CSV

TAB

Printer

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

Buf/N (MCW)

Visual

CSV

TAB

Printer

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

COP/CrCrl (MCW & UW)

Visual

CSV

TAB

Printer

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

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

F344/NRrrc (MCW)

Visual

CSV

TAB

Printer

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

FHH/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)

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)

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)

GK/Ox (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

LE/Stm (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

LEW/Crl (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

LEW/NCrlBR (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

LH/MavRrrc (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

LL/MavRrrc (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

LN/MavRrrc (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

M520/N (MCW)

Visual

CSV

TAB

Printer

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

MHS/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

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)

Visual

CSV

TAB

Printer

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

SBH/Ygl (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:	SBH/Ygl sequenced by MCW

SBH/Ygl (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

SBN/Ygl (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:	SBN/Ygl sequenced by MCW

SBN/Ygl (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

SHR/NHsd (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

SHRSP/Gcrc (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

SR/JrHsd (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:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (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

SS/Jr (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

SS/JrHsdMcwi (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)

SS/JrHsdMcwi (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

WAG/Rij (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

WKY/Gcrc (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

WKY/N (MCW)

Visual

CSV

TAB

Printer

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

WKY/NCrl (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

WKY/NHsd (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

WN/N (MCW)

Visual

CSV

TAB

Printer

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:727800	AgrOrtholog
Ensembl Genes	ENSRNOG00000002057	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000002819	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000072386	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000002819	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000088508	UniProtKB/Swiss-Prot
Gene3D-CATH	1.20.1530.20	UniProtKB/Swiss-Prot
InterPro	BilAc:Na_symport/Acr3	UniProtKB/Swiss-Prot
	Bilac:Na_transpt	UniProtKB/Swiss-Prot
	Na+/solute_symporter_sf	UniProtKB/Swiss-Prot
	SLC10A6	UniProtKB/Swiss-Prot
KEGG Report	rno:289459	UniProtKB/Swiss-Prot
NCBI Gene	289459	ENTREZGENE
PANTHER	PTHR10361	UniProtKB/Swiss-Prot
	PTHR10361:SF55	UniProtKB/Swiss-Prot
Pfam	SBF	UniProtKB/Swiss-Prot
PhenoGen	Slc10a6	PhenoGen
UniGene	Rn.231621	ENTREZGENE
UniProt	Q70EX6	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-25	Slc10a6	solute carrier family 10 member 6	Slc10a6	solute carrier family 10 (sodium/bile acid cotransporter), member 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-08-02	Slc10a6	solute carrier family 10 (sodium/bile acid cotransporter), member 6	Slc10a6	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-07	Slc10a6	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	Soat	sodium-dependent organic anion transporter	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-07-08	Soat	sodium-dependent organic anion transporter			Symbol and Name status set to approved	1299863	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_domains	predicted to have nine transmembrane domains	1302411
gene_expression	expressed in rat brain, heart, kidney, lung, muscle, spleen, testis, adrenal gland, small intestine, and colon	1302411
gene_function	transports estrone-3-sulfate and DHEAS but not taurocholate, estradiol-17-glucuronide, or ouabain	1302411

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