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Gene: Slc46a2 (solute carrier family 46, member 2) Rattus norvegicus

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Symbol:

Slc46a2

Name:

solute carrier family 46, member 2

RGD ID:

1310485

Description:

Predicted to enable cyclic-GMP-AMP transmembrane transporter activity. Predicted to be involved in cyclic-GMP-AMP transmembrane import across plasma membrane and positive regulation of nucleotide-binding activity oligomerization domain containing 1 signaling pathway. Predicted to act upstream of or within several processes, including T cell homeostasis; negative regulation of T cell apoptotic process; and thymus development. Predicted to be located in cell surface and plasma membrane. Predicted to be active in membrane. Orthologous to human SLC46A2 (solute carrier family 46 member 2); INTERACTS WITH bisphenol A; copper atom; copper(0).

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC298034; solute carrier family 46 member 2; thymic stromal cotransporter; thymic stromal cotransporter homolog; Tscot

RGD Orthologs

Alliance Orthologs

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):	SLC46A2 (solute carrier family 46 member 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Slc46a2 (solute carrier family 46, member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Slc46a2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SLC46A2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SLC46A2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Slc46a2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SLC46A2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SLC46A2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Slc46a2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Slc46a2 (solute carrier family 46 member 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	IL21R (interleukin 21 receptor)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	SLC46A2 (solute carrier family 46 member 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Slc46a2 (solute carrier family 46, member 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG15553	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG15553	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	C46C11.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	C46C11.2	Alliance	DIOPT (OrthoFinder\|PANTHER)
Caenorhabditis elegans (roundworm):	F40F9.5	Alliance	DIOPT (OrthoFinder\|PANTHER)
Saccharomyces cerevisiae (baker's yeast):	YJL163C	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|PANTHER)
Saccharomyces cerevisiae (baker's yeast):	YJL163C	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER)
Drosophila melanogaster (fruit fly):	CG15890	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG15890	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG30344	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG30344	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG30345	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG30345	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG31321	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG31321	Alliance	DIOPT (Ensembl Compara\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG42514	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG42514	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	slc46a2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	slc46a2	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	LOC100487203	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	LOC100487354	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	79,594,003 - 79,603,074 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	79,595,150 - 79,603,114 (-)	Ensembl				GRCr8
mRatBN7.2	5	74,800,226 - 74,808,128 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	74,800,226 - 74,808,128 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	76,700,364 - 76,708,304 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	78,521,999 - 78,529,935 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	78,494,162 - 78,502,102 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	77,165,463 - 77,174,177 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	77,165,598 - 77,173,502 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	81,300,022 - 81,307,920 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	78,044,714 - 78,052,612 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	73,609,789 - 73,617,699 (-)	NCBI		Celera
RGSC_v3.1	5	78,043,262 - 78,057,672 (-)	NCBI
Cytogenetic Map	5	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,4,4'-trichlorobiphenyl (ISO)

2-hydroxypropanoic acid (ISO)

4,4'-sulfonyldiphenol (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

calcitriol (ISO)

copper atom (EXP)

copper(0) (EXP)

diazinon (ISO)

diclofenac (ISO)

lipopolysaccharide (ISO)

medroxyprogesterone acetate (ISO)

nickel atom (ISO)

PCB138 (ISO)

pinostrobin (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

tributylstannane (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cyclic-GMP-AMP transmembrane import across plasma membrane (IEA,ISO)

negative regulation of T cell apoptotic process (ISO)

positive regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway (IEA,ISO)

regulation of T cell differentiation (ISO)

T cell homeostasis (ISO)

thymus development (ISO)

transmembrane transport (IBA,IEA)

Cellular Component

cell surface (IEA,ISO)

membrane (IBA,IEA)

plasma membrane (IEA,ISO)

Molecular Function

cyclic-GMP-AMP transmembrane transporter activity (IEA,ISO)

transmembrane transporter activity (IBA,IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10706709	PMID:18684012	PMID:28539433

Genomics

Comparative Map Data

Slc46a2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	79,594,003 - 79,603,074 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	79,595,150 - 79,603,114 (-)	Ensembl				GRCr8
mRatBN7.2	5	74,800,226 - 74,808,128 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	74,800,226 - 74,808,128 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	76,700,364 - 76,708,304 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	78,521,999 - 78,529,935 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	78,494,162 - 78,502,102 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	77,165,463 - 77,174,177 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	77,165,598 - 77,173,502 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	81,300,022 - 81,307,920 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	78,044,714 - 78,052,612 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	73,609,789 - 73,617,699 (-)	NCBI		Celera
RGSC_v3.1	5	78,043,262 - 78,057,672 (-)	NCBI
Cytogenetic Map	5	q24	NCBI

SLC46A2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	112,878,920 - 112,890,876 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	112,878,920 - 112,890,876 (-)	Ensembl			hg38	GRCh38
GRCh37	9	115,641,200 - 115,653,156 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	114,681,021 - 114,692,866 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	9	112,720,755 - 112,732,600	NCBI
Celera	9	86,314,093 - 86,326,088 (+)	NCBI		Celera
Cytogenetic Map	9	q32	NCBI
HuRef	9	85,239,036 - 85,251,012 (-)	NCBI		HuRef
CHM1_1	9	115,788,488 - 115,800,474 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	125,050,362 - 125,072,489 (-)	NCBI		T2T-CHM13v2.0

Slc46a2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	59,905,899 - 59,915,056 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	59,905,126 - 59,915,056 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	4	59,905,899 - 59,915,056 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	59,905,126 - 59,915,056 (-)	Ensembl			mm10	GRCm38
MGSCv37	4	59,918,771 - 59,927,928 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	4	59,999,180 - 60,009,110 (-)	NCBI		MGSCv36	mm8
Celera	4	59,822,589 - 59,831,770 (-)	NCBI		Celera
Cytogenetic Map	4	B3	NCBI
cM Map	4	32.81	NCBI

Slc46a2
(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_004955419	14,547,103 - 14,557,531 (+)	Ensembl
ChiLan1.0	NW_004955419	14,547,393 - 14,557,447 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLC46A2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	11	26,549,345 - 26,561,525 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	26,551,704 - 26,563,884 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	84,001,056 - 84,013,231 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	112,154,001 - 112,165,906 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	112,154,001 - 112,165,906 (-)	Ensembl			panPan2	panpan1.1

SLC46A2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	67,297,596 - 67,305,893 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	67,297,597 - 67,305,893 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	65,704,288 - 65,712,588 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	68,423,487 - 68,431,777 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	68,423,488 - 68,431,777 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	66,939,761 - 66,948,049 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	66,962,952 - 66,971,235 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	67,707,572 - 67,715,860 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Slc46a2
(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_024404947	182,586,765 - 182,596,316 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936559	670,231 - 679,766 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936559	670,239 - 674,061 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC46A2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	253,559,546 - 253,570,113 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	1	253,559,545 - 253,571,015 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	284,368,646 - 284,379,213 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC46A2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	12	26,631,295 - 26,646,112 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	26,633,493 - 26,646,038 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666035	16,145,372 - 16,158,151 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc46a2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624760	22,124,321 - 22,134,906 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624760	22,124,321 - 22,134,601 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Slc46a2
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	91,501,169 - 91,509,106 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Slc46a2
30 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	42
Count of miRNA genes:	40
Interacting mature miRNAs:	41
Transcripts:	ENSRNOT00000023588
Prediction methods:	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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1298067	Scl15	Serum cholesterol level QTL 15	4.8	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	38011670	83011670	Rat
1300115	Hrtrt7	Heart rate QTL 7	2.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	52665372	94894052	Rat
1357396	Bw44	Body weight QTL 44	4.19		body mass (VT:0001259)	body weight (CMO:0000012)	5	73779642	118779642	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	44924861	153890773	Rat
6907115	Mcs29	Mammary carcinoma susceptibility QTL 29			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	38004331	83004331	Rat
61380	Edpm5	Estrogen-dependent pituitary mass QTL 5	4.5	0.92	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	5	73779642	103472210	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	38207390	136631402	Rat
61386	Bp49	Blood pressure QTL 49	16.6		cerebrum integrity trait (VT:0010549)	brain infarction volume (CMO:0001013)	5	65089051	103648916	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	48523123	134369373	Rat
2302381	Bw84	Body weight QTL 84	4.47		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	5	73779642	118779642	Rat
1357402	Bw46	Body weight QTL 46	4.47		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	5	73779642	118779642	Rat
1598807	Glom12	Glomerulus QTL 12	2.7		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	38011670	83011670	Rat
1302786	Kidm8	Kidney mass QTL 8	28.15		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	38011670	83011670	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	65089051	166764498	Rat
1331782	Rf36	Renal function QTL 36	3.296		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	39019942	102105896	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	51657967	166600247	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55124766	172190305	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	39985948	84985948	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	6922282	81330203	Rat
7394708	Emca11	Estrogen-induced mammary cancer QTL 11			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	73176602	118176602	Rat
1576317	Eutr2	Estrogen induced uterine response QTL 2		0.01	uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	39526924	84526924	Rat
1331773	Scl26	Serum cholesterol level QTL 26	3.065		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	48523123	91770353	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	69474415	114474415	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	60601597	137492949	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	91770353	Rat
61359	Eaex	Experimental allergic encephalomyelitis QTL x	3		nervous system integrity trait (VT:0010566)	post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)	5	60511627	105511627	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	74335621	156302135	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	36460764	136631402	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	64589016	109589016	Rat
2290005	Mcs24	Mammary carcinoma susceptibility QTL 24			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	69835120	114835120	Rat
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	87027358	Rat
2306971	Anxrr21	Anxiety related response QTL 21	9.47		fear/anxiety-related behavior trait (VT:1000241)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	5	70969494	136328156	Rat
2316954	Rf57	Renal function QTL 57	0		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	64589016	93503770	Rat
2312671	Scl64	Serum cholesterol level QTL 64		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	73779642	118779642	Rat
2316959	Gluco59	Glucose level QTL 59	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	56546393	101546393	Rat
2316957	Pur21	Proteinuria QTL 21	6.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	5	64589016	91762830	Rat

Markers in Region

D5Rat143

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	5	79,603,679 - 79,603,928 (+)	Marker Load Pipeline
mRatBN7.2	5	74,808,759 - 74,809,008 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	77,174,135 - 77,174,383	NCBI	Rnor6.0
Rnor_5.0	5	81,308,552 - 81,308,800	UniSTS	Rnor5.0
RGSC_v3.4	5	78,053,212 - 78,053,523	RGD	RGSC3.4
RGSC_v3.4	5	78,053,244 - 78,053,492	UniSTS	RGSC3.4
Celera	5	73,618,331 - 73,618,579	UniSTS
RGSC_v3.1	5	78,058,357 - 78,058,605	RGD
RH 3.4 Map	5	542.0	UniSTS
RH 3.4 Map	5	542.0	RGD
RH 2.0 Map	5	416.5	RGD
SHRSP x BN Map	5	43.4199	RGD
Cytogenetic Map	5	q24	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
11	11	31	82	51	50	19	61	19	6	195	121	6	61	36	45	31	12	12

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001106652	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008763734	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287326	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474039	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000023588 ⟹ ENSRNOP00000023588

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	79,595,150 - 79,603,048 (-)	Ensembl
mRatBN7.2 Ensembl	5	74,800,226 - 74,808,128 (-)	Ensembl
Rnor_6.0 Ensembl	5	77,165,598 - 77,173,502 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000134567 ⟹ ENSRNOP00000109381

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	79,595,150 - 79,603,114 (-)	Ensembl

RefSeq Acc Id:

NM_001106652 ⟹ NP_001100122

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	79,595,150 - 79,603,048 (-)	NCBI
mRatBN7.2	5	74,800,226 - 74,808,128 (-)	NCBI
Rnor_6.0	5	77,165,605 - 77,173,503 (-)	NCBI
Rnor_5.0	5	81,300,022 - 81,307,920 (-)	NCBI
RGSC_v3.4	5	78,044,714 - 78,052,612 (-)	RGD
Celera	5	73,609,789 - 73,617,699 (-)	RGD

Sequence:

show sequence

CACACAGCCACCTCAGCTCTGCTCTCGAGGCACGCACTTGAAACACTCTGGGACTGAGCCCTGA
CCCTCCAAATTTGGGAGCATCTCCCAGACTCTGCAGACAGCAAGGCCCGTTCCCTGTCACACAG
GTCACATGGGTCCCGGGTTCACCTGTCCGTGGAGCGGCTCGCTCTCTGGCTTCCGGGTGAGGAC
TTGGATCGAGCCTGTGGTGGCTTCAACCCAGGTGGCCGGTTCCCTCTATGATACAGGACTACTT
CTGGTACTGAAGGAGTCCTTTGCATCTGACGCTAGAGACTCCTCTAATTACAGTGCCAACCAGT
CGCTGGGGGAACGTCAGGAGGACCAACAGCAGAAGGCCATCTCCAATTTCTACATCATTTACAA
CCTCGTGGTGGGCCTGACACCCCTGCTGTCCGCCTATGTACTGGGCTGGCTCAGCGACCGCTAC
CACCGTAAGATCTCTATCTGCACGGCGATGCTGGGCTTCCTTCTGTCCCGCATCGGACTCTTAC
TCAAAGTGATGCTGGACTGGCCACTGGAGGTGATGTACGGAGCAGCGGCGCTCAATGGGCTGTG
CGGGGGCTTCTCCGCTTATTGGTCCGGGGTCATGGCGCTGGGATCCCTGAGCTGCTCCCAAAGC
CGCCGCTCCGTGCGCCTCATCCTCATCGATTTAGTCCTAGGCTTGGCTGGGTTCTGTGGCAGTA
TGGCTTCAGGGCATCTCTTCAAGCAAATCGTTGGGCACTCTGCGCAAGGCCTTCTGTTAACCGC
CTGCAGCGTGGGCTGTGCGGCGTTTGCCCTTTTCTACAGTCTCTTCGTGCTAAAGGTCCCTGAA
GCTGTGTCCAAGCCCAACAAGGTGCACCCCACTGTAGATACTGTGTCTGGCATGATGGGCACCT
ATCGAACCCTGGATCCAGATCAACAGGACAAGCCTAATATACAGGCAAACCCTCCAACTCCTGG
AAAAGAGAAGCCTTCCCAAGCCATCATTGCTCTGCTGTTTGTGGGCGCCATTGTTTATGACCTT
GCTGTCGTGGGCACATTGGACGTTATGGCCCTTTTCGTGCTAAAGGATCCTCTCCATTGGAACC
AAGTGCAGCTGGGCTATGGGATGGCTTCTGGGTACATAATCTTCATAACCAGCTTCTTGGGTGT
CTTGGTCTTCTCCCGCTACTTCCGGGACACCACGATGATCATAATTGGGATGGTTTCCTTTGGG
TCTGGAGCCCTTCTCTTGGCCTTTGTGAAGAAGACATACATGTTCTATATTGCCCGAGCTGTCA
TGCTGTTTGCACTTATTCCCATCACAACCATCCGGTCAGCCATGTCCAAGCTTGTAAAGGACTC
TTCCTATGGAAAGATTTTCGTCATACTGCAGCTGTGCCTAGCTCTGACTGGGGTGGTGACATCC
ACCATGTACAACAAGATCTATCAGCTTACGCTGAACAAGTTCGCCGGCACCTGCTTTCTTCTGT
CTTCTTTTCTCTCCTTCTTGGCCATTGTCCCAATTGGTGTTGTGGCCTACAAACAAGTCCCGGG
GTCACGACAAGGAGAGTGTGCGGATACACAGAGGAGCTGAAATGCCAGCGAGAACAAGGTTCTG
CCCGTGAGACCCAAGTTCCAGTCTTCCCATAACCCTCGGGTCCCTAGTGGGAGGGAAATCGCCT
TCTGGGTGTTGCAGGAAATTTCCTAGTGCTCCTCCAATGCCTCTGCTAGGCAGAGGTCAGGCCT
GGGTGTACCAGCTGCTGGCTCGGGCATTCTGGGTCCTGGAGGGCTTCAGGCTCCAGCCAGCCAG
CCCCTTACTTCCATTGCTATCTTAACGATGCCAGTGGAGGAACATGGGGATCGTGCTAGTTCTA
TGGAAGACTGTGACTAAAGCCTAAACTTCACCAGCCCAAGGGGAATGAACACGAAACGGACAGT
TTGCTAAAACTGACAACAGTTTTGCACACATGACAACAGTTTATAAATTAATATAAAATCTTGG
G

hide sequence

RefSeq Acc Id:

XM_063287326 ⟹ XP_063143396

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	79,594,003 - 79,603,074 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001100122	(Get FASTA)	NCBI Sequence Viewer
	XP_063143396	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL91628	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000023588
	ENSRNOP00000023588.3
	ENSRNOP00000109381
	ENSRNOP00000109381.1

RefSeq Acc Id:

NP_001100122 ⟸ NM_001106652

- UniProtKB:

D4A6S9 (UniProtKB/TrEMBL), A6KDX7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGPGFTCPWSGSLSGFRVRTWIEPVVASTQVAGSLYDTGLLLVLKESFASDARDSSNYSANQSL
GERQEDQQQKAISNFYIIYNLVVGLTPLLSAYVLGWLSDRYHRKISICTAMLGFLLSRIGLLLK
VMLDWPLEVMYGAAALNGLCGGFSAYWSGVMALGSLSCSQSRRSVRLILIDLVLGLAGFCGSMA
SGHLFKQIVGHSAQGLLLTACSVGCAAFALFYSLFVLKVPEAVSKPNKVHPTVDTVSGMMGTYR
TLDPDQQDKPNIQANPPTPGKEKPSQAIIALLFVGAIVYDLAVVGTLDVMALFVLKDPLHWNQV
QLGYGMASGYIIFITSFLGVLVFSRYFRDTTMIIIGMVSFGSGALLLAFVKKTYMFYIARAVML
FALIPITTIRSAMSKLVKDSSYGKIFVILQLCLALTGVVTSTMYNKIYQLTLNKFAGTCFLLSS
FLSFLAIVPIGVVAYKQVPGSRQGECADTQRS

hide sequence

Ensembl Acc Id:

ENSRNOP00000023588 ⟸ ENSRNOT00000023588

RefSeq Acc Id:	XP_063143396 ⟸ XM_063287326
- Peptide Label:	isoform X1

Ensembl Acc Id:

ENSRNOP00000109381 ⟸ ENSRNOT00000134567

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A6S9-F1-model_v2	AlphaFold	D4A6S9	1-480	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310485	AgrOrtholog
BioCyc Gene	G2FUF-41132	BioCyc
Ensembl Genes	ENSRNOG00000017324	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000023588	ENTREZGENE
	ENSRNOT00000023588.7	UniProtKB/TrEMBL
	ENSRNOT00000134567	ENTREZGENE
	ENSRNOT00000134567.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.1250.20	UniProtKB/TrEMBL
InterPro	MFS_1	UniProtKB/TrEMBL
	MFS_trans_sf	UniProtKB/TrEMBL
	Tet-R_TetA	UniProtKB/TrEMBL
KEGG Report	rno:298034	UniProtKB/TrEMBL
NCBI Gene	298034	ENTREZGENE
PANTHER	THYMIC STROMAL COTRANSPORTER HOMOLOG	UniProtKB/TrEMBL
	ZGC:174356	UniProtKB/TrEMBL
Pfam	MFS_1	UniProtKB/TrEMBL
PhenoGen	Slc46a2	PhenoGen
PRINTS	TCRTETA	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000017324	RatGTEx
Superfamily-SCOP	MFS_gen_substrate_transporter	UniProtKB/TrEMBL
UniProt	A0ABK0LY38_RAT	UniProtKB/TrEMBL
	A6KDX7	ENTREZGENE, UniProtKB/TrEMBL
	D4A6S9	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-04	Slc46a2	solute carrier family 46, member 2	Tscot_predicted	thymic stromal cotransporter (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-12	Tscot_predicted	thymic stromal cotransporter (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

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

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