Slc30a1 (solute carrier family 30 member 1)

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Gene: Slc30a1 (solute carrier family 30 member 1) Rattus norvegicus

Analyze

Symbol:

Slc30a1

Name:

solute carrier family 30 member 1

RGD ID:

61918

Description:

Enables calcium channel inhibitor activity; zinc ion transmembrane transporter activity; and zinc:proton antiporter activity. Involved in detoxification of cadmium ion; metal ion transport; and negative regulation of neurotransmitter secretion. Acts upstream of or within zinc ion transport. Located in T-tubule. Is active in Schaffer collateral - CA1 synapse and postsynaptic density membrane. Orthologous to human SLC30A1 (solute carrier family 30 member 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-methoxyethanol; acetamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

proton-coupled zinc antiporter SLC30A1; solute carrier family 30 (zinc transporter) member 1; solute carrier family 30 (zinc transporter), member 1; solute carrier family 30, member 1; zinc transporter 1; znT-1

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SLC30A1 (solute carrier family 30 member 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Slc30a1 (solute carrier family 30 (zinc transporter), member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Slc30a1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SLC30A1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SLC30A1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Slc30a1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SLC30A1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SLC30A1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Slc30a1 (solute carrier family 30 member 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Slc30a1 (solute carrier family 30 (zinc transporter), member 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	SLC30A1 (solute carrier family 30 member 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	slc30a1b (solute carrier family 30 member 1b)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	slc30a1a (solute carrier family 30 member 1a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	COT1	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	ZnT63C	Alliance	DIOPT (InParanoid\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	cdf-1	Alliance	DIOPT (InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	ZRC1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	103,491,037 - 103,494,910 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	103,491,037 - 103,494,910 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	106,010,977 - 106,014,850 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	13	107,394,814 - 107,398,687 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	13	104,609,816 - 104,613,689 (+)	NCBI	Rnor_WKY
Rnor_6.0	13	110,677,810 - 110,681,683 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	110,677,810 - 110,681,683 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	115,236,547 - 115,240,420 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	107,980,864 - 107,986,519 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	108,169,967 - 108,175,623 (+)	NCBI
Celera	13	102,913,629 - 102,934,174 (+)	NCBI		Celera
Cytogenetic Map	13	q27	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

parathyroid carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-demecolcine (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

1-(5-isoquinolinesulfonyl)-2-methylpiperazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

2-methoxyethanol (EXP)

5-(2-methylpiperazine-1-sulfonyl)isoquinoline (ISO)

5-aza-2'-deoxycytidine (ISO)

acetamide (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

aldehydo-D-glucose (EXP)

aldosterone (EXP)

all-trans-retinoic acid (ISO)

all-trans-retinol (EXP)

AM-251 (ISO)

amiodarone (ISO)

ammonium chloride (EXP)

antimycin A (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

butan-1-ol (ISO)

cadmium atom (ISO)

cadmium dichloride (EXP,ISO)

caffeine (ISO)

calcitriol (EXP,ISO)

calcium atom (EXP)

calcium(0) (EXP)

cannabidiol (ISO)

CGP 52608 (ISO)

chrysene (ISO)

cisplatin (ISO)

cobalt dichloride (EXP,ISO)

colforsin daropate hydrochloride (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) chloride (ISO)

copper(II) sulfate (ISO)

coumestrol (ISO)

CU-O LINKAGE (ISO)

curcumin (ISO)

D-glucose (EXP)

D-penicillamine (EXP)

deguelin (ISO)

dexamethasone (ISO)

dextran sulfate (ISO)

diarsenic trioxide (ISO)

dibenz[a,h]anthracene (ISO)

dibutyl phthalate (EXP)

dicoumarol (ISO)

dicrotophos (ISO)

disulfiram (ISO)

diuron (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

elesclomol (ISO)

endosulfan (EXP)

epoxiconazole (ISO)

ethyl methanesulfonate (ISO)

flurotyl (EXP)

formaldehyde (ISO)

genistein (ISO)

genistein 7-O-beta-D-glucoside (ISO)

gentamycin (EXP)

glucose (EXP)

irinotecan (ISO)

isotretinoin (ISO)

ivermectin (ISO)

lead diacetate (ISO)

leflunomide (ISO)

lipopolysaccharide (ISO)

mercury atom (EXP)

mercury dibromide (ISO)

mercury dichloride (EXP)

mercury(0) (EXP)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

motexafin gadolinium (ISO)

N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (EXP,ISO)

N-acetyl-L-cysteine (ISO)

nefazodone (EXP)

nickel dichloride (EXP)

nitroprusside (ISO)

ochratoxin A (ISO)

oxaliplatin (EXP)

p-chloromercuribenzoic acid (ISO)

paracetamol (EXP,ISO)

paraquat (EXP)

pentetic acid (EXP)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

phorone (EXP)

picoxystrobin (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

propanal (ISO)

protein kinase inhibitor (ISO)

quercetin (ISO)

quinolin-8-ol (ISO)

rotenone (EXP,ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

silver(1+) nitrate (ISO)

sodium arsenite (ISO)

spironolactone (EXP)

staurosporine (ISO)

sulfasalazine (ISO)

sulindac (ISO)

sunitinib (ISO)

testosterone (ISO)

tetraphene (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

topotecan (EXP)

trichostatin A (ISO)

triptonide (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

zidovudine (ISO)

zinc acetate (ISO)

zinc atom (EXP,ISO)

zinc dichloride (EXP,ISO)

zinc oxide (ISO)

zinc sulfate (EXP,ISO)

zinc(0) (EXP,ISO)

ziram (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cadmium ion transmembrane transport (IMP)

calcium ion import (IMP)

defense response to bacterium (ISO,ISS)

detoxification of cadmium ion (IMP)

detoxification of zinc ion (IBA)

in utero embryonic development (ISO)

intracellular calcium ion homeostasis (ISO)

intracellular zinc ion homeostasis (IBA,ISO)

negative regulation of calcium ion import (ISO)

negative regulation of neurotransmitter secretion (IMP)

negative regulation of zinc ion transmembrane import (ISO)

zinc export across plasma membrane (IDA,IMP)

zinc ion import into organelle (ISO,ISS)

zinc ion transmembrane transport (IBA)

zinc ion transport (IDA,IMP,ISO)

Cellular Component

basolateral plasma membrane (ISO,ISS)

cytoplasm (ISO)

cytoplasmic vesicle membrane (ISO,ISS)

endoplasmic reticulum (IBA,ISO)

Golgi apparatus (IBA,ISO)

membrane (IDA)

nuclear membrane (ISO)

plasma membrane (IDA,ISO)

postsynaptic density membrane (IDA,IEP)

Schaffer collateral - CA1 synapse (IDA,IEP)

T-tubule (IDA)

Molecular Function

calcium channel inhibitor activity (IBA,IMP,ISO)

metal ion binding (IEA)

protein binding (ISO)

zinc ion transmembrane transporter activity (IBA,IDA,IMP)

zinc:proton antiporter activity (IDA)

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.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
4.	Silencing of ZnT-1 expression enhances heavy metal influx and toxicity.	Ohana E, etal., J Mol Med (Berl). 2006 Sep;84(9):753-63. Epub 2006 Jun 2.
5.	Cloning and functional characterization of a mammalian zinc transporter that confers resistance to zinc.	Palmiter RD and Findley SD, EMBO J 1995 Feb 15;14(4):639-49.
6.	Silencing of ZnT1 reduces Zn2+ efflux in cultured cortical neurons.	Qin Y, etal., Neurosci Lett. 2009 Jan 30;450(2):206-10. doi: 10.1016/j.neulet.2008.11.069. Epub 2008 Dec 10.
7.	GOA pipeline	RGD automated data pipeline
8.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
9.	ZnT-1 extrudes zinc from mammalian cells functioning as a Zn(2+)/H(+) exchanger.	Shusterman E, etal., Metallomics. 2014 Sep;6(9):1656-63. doi: 10.1039/c4mt00108g.
10.	Zinc transporter-1 concentrates at the postsynaptic density of hippocampal synapses.	Sindreu C, etal., Mol Brain. 2014 Mar 7;7:16. doi: 10.1186/1756-6606-7-16.
11.	Tentative Sequence Identification Numbers	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:9560190	PMID:15378655	PMID:15451416	PMID:15452870	PMID:15867272	PMID:17196651	PMID:17349999	PMID:18158319	PMID:18289514	PMID:19059322	PMID:19767393	PMID:20167268
PMID:20201890	PMID:20838921	PMID:21775119	PMID:24807795	PMID:25319628	PMID:26463958

Genomics

Comparative Map Data

Slc30a1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	103,491,037 - 103,494,910 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	103,491,037 - 103,494,910 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	106,010,977 - 106,014,850 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	13	107,394,814 - 107,398,687 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	13	104,609,816 - 104,613,689 (+)	NCBI	Rnor_WKY
Rnor_6.0	13	110,677,810 - 110,681,683 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	110,677,810 - 110,681,683 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	115,236,547 - 115,240,420 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	107,980,864 - 107,986,519 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	108,169,967 - 108,175,623 (+)	NCBI
Celera	13	102,913,629 - 102,934,174 (+)	NCBI		Celera
Cytogenetic Map	13	q27	NCBI

SLC30A1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	211,571,568 - 211,579,161 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	1	211,571,568 - 211,579,161 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	211,744,910 - 211,752,503 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	209,815,004 - 209,818,722 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	208,136,777 - 208,140,494	NCBI
Celera	1	184,975,478 - 184,979,196 (-)	NCBI		Celera
Cytogenetic Map	1	q32.3	NCBI
HuRef	1	182,425,777 - 182,429,495 (-)	NCBI		HuRef
CHM1_1	1	213,020,769 - 213,024,487 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	210,817,650 - 210,825,243 (-)	NCBI		T2T-CHM13v2.0

Slc30a1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	191,638,810 - 191,645,359 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	191,638,879 - 191,645,359 (+)	Ensembl		GRCm39 Ensembl
GRCm38	1	191,906,697 - 191,913,248 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	191,906,767 - 191,913,247 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	193,730,660 - 193,737,126 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	193,607,396 - 193,613,862 (+)	NCBI		MGSCv36	mm8
Celera	1	198,856,473 - 198,862,938 (+)	NCBI		Celera
Cytogenetic Map	1	H6	NCBI
cM Map	1	97.01	NCBI

Slc30a1
(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_004955406	5,639,341 - 5,668,331 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955406	5,662,312 - 5,668,331 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLC30A1
(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	1	192,002,503 - 192,009,515 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	1	187,139,544 - 187,147,113 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

SLC30A1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	7	9,952,373 - 9,959,382 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	7	9,955,877 - 9,959,388 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	7	9,530,323 - 9,537,455 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	7	9,658,190 - 9,665,320 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	7	9,659,293 - 9,665,282 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	7	9,581,103 - 9,588,235 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	7	9,683,054 - 9,690,180 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	7	9,807,567 - 9,814,703 (-)	NCBI		UU_Cfam_GSD_1.0

Slc30a1
(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_024409344	64,548,981 - 64,555,903 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936557	1,789,263 - 1,796,541 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936557	1,789,263 - 1,796,548 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC30A1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	131,633,585 - 131,640,672 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	131,633,586 - 131,636,934 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	144,671,051 - 144,677,621 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC30A1
(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	25	17,926,656 - 17,933,805 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	25	17,926,078 - 17,933,783 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666055	18,450,966 - 18,458,625 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc30a1
(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_004624771	17,262,866 - 17,270,340 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624771	17,262,933 - 17,269,795 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Slc30a1
14 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	399
Count of miRNA genes:	234
Interacting mature miRNAs:	280
Transcripts:	ENSRNOT00000006340
Prediction methods:	Microtar, Miranda, 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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	61825626	106807694	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	65103704	106807694	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	65103704	106807694	Rat
4889606	Gluco63	Glucose level QTL 63	2.86	0.003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	80753256	106807694	Rat

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	28	57	41	19	41	1	1	74	33	39	11	1
Low	1	15					7	10		2	2		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_022853	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473985	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000245	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U17133	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000006340 ⟹ ENSRNOP00000006340

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	103,491,037 - 103,494,910 (+)	Ensembl
Rnor_6.0 Ensembl	13	110,677,810 - 110,681,683 (+)	Ensembl

RefSeq Acc Id:

NM_022853 ⟹ NP_074044

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	103,491,037 - 103,494,910 (+)	NCBI
Rnor_6.0	13	110,677,810 - 110,681,683 (+)	NCBI
Rnor_5.0	13	115,236,547 - 115,240,420 (+)	NCBI
RGSC_v3.4	13	107,980,864 - 107,986,519 (+)	RGD
Celera	13	102,913,629 - 102,934,174 (+)	RGD

Sequence:

show sequence

CGCGGTCTCCCGAGCGCCTCGGTCCGATGCTCGGCAGCCCCTCGGTACGCAGTGGCCCGCCGCG
CCCTCCGCCTCGCCAGTACAGCCGAGCGCCGGCGCTTGAGTAGCTGCGCGGCCGGCGGTTTCTC
CACAGCGCCGCTCCCGCGTCAGCGCCGAGCTTCAGGCCGCCGCCATGGGCTGCTGGGGCCGCAA
CCGCGGCCGGCTGCTGTGCATGCTGCTGCTGACCTTCATGTTCATGGTGCTGGAGGTGGTGGTG
AGCCGGGTGACCGCGTCGCTCGCCATGCTGTCCGACTCCTTCCACATGCTGTCGGACGTGCTGG
CGCTCGTGGTGGCGCTGGTGGCCGAGCGCTTCGCCCGGAGGACTCACGCCACGCAGAAGAACAC
ATTCGGCTGGATCCGCGCTGAGGTGATGGGCGCGCTGGTGAACGCCATCTTCCTCACGGGGCTG
TGCTTCGCCATCCTGCTGGAAGCCGTCGAGCGCTTCATCGAGCCGCATGAGATGCAGCAGCCGC
TCGTGGTGCTTAGCGTCGGCGTGGCGGGGCTGCTAGTCAACGTGCTGGGGCTCTGCCTGTTCCA
CCACCACAGCGGCGAGGGCCAGGGCGCAGGCCACGGCCACTCGCACGGCCACGGCCACGGCCAC
CTCGCCAAGGGCGCGCGCAAGGCGGGCCGCGCGGGGGGCGAAGCGGGCGCGCCGCCGGGCCGGG
CGCCGGACCAGGAGCCGGACCAGGAGGAGACCAACACGCTAGTGGCTAACACCAGCAATTCCAA
CGGGCTGAAGGCGGACCAGGCAGAGCCAGAGAAGTTGAGAAGTGATGATCCAGTGGATGTACAG
GTAAATGGGAATCTCATCCAGGAGTCAGACAGTCTGGAATCAGAAGACAACAGGGCTGGACAGC
TGAACATGCGAGGAGTGTTTCTGCACGTCCTTGGAGATGCCCTGGGCTCTGTGATCGTTGTTGT
GAATGCCTTGGTCTTCTACTTTTCCTGGAAGGGTTGTACTGAAGACGACTTTTGTGTGAACCCG
TGTTTTCCTGATCCCTGCAAATCGTCTGTAGAGCTGATGAACAGCACCCAGGCCCCCATGCACG
AGGCTGGTCCGTGCTGGGTCCTCTACCTAGATCCAACCCTGTGCATTATAATGGTTTGTATACT
TCTTTACACGACGTACCCACTGCTCAAGGAGTCCGCTCTCATTCTTCTACAGACTGTTCCTAAG
CAAATTGATATCAAACATTTGGTAAAAGAGCTACGAGATGTTGAAGGAGTGGAGGAAGTCCATG
AGTTACACGTCTGGCAGCTCGCCGGAAGCAGGATCATCGCCACTGCTCATATAAAATGTGAAGA
CCCAGCTTCATACATGCAGGTGGCCAAAACCATTAAAGATGTTTTTCACAATCATGGAATTCAC
GCCACCACCATCCAGCCTGAATTCGCTAGCGTAGGCTCTAAATCAAGTGTCGTCCCGTGTGAGC
TCGCCTGCAGAACTCAGTGTGCTTTGAAGCAGTGCTGTGGGACACGGCCACAGGTCCATTCTGG
AAAGGAGGCAGAGAAGGCTCCAACAGTTAGCATTTCTTGTTTAGAACTCAGTGAAAACCTAGAG
AAGAAGCCCAGGAGGACTAAAGCTGAAGGCAGTGTCCCCGCTGTGGTGATAGAGATTAAAAATG
TGCCAAACAAACAGCCCGAATCATCTTTGTGAGCCTTGAGAAAGATGTGATATTTGACTTTGCT
TTTAAACTGCAAGAGAAAATAGACTCCATTGAAATGCTAAGTTTGCCACGTAGTGTAATTGAAG
TCCTCGTCTGGTCGCACAGTTTAATTCTATTTTTGTCAGAACGTAATGGAACTGCAGAATAGAG
TGCGCTACAGCACAGCCTCGCGATTACTAGTGCATAGTGCAGCTGTGCTGGAGCACGCTTTGAA
AGCCAGTTTAACACTATGTTACATTTTTGTTTAAAGTAAGTATAGACCTTATATGACATAATGA
CATTTGATTCCTGGTTTTCCCATGATAAAAATTAGGGGGATAAATAAAATTGTTACTGGAATTT
CTCTGCTTTTCTTTCCCCCATTGTTATATCTTATCTGTTAGGATTGTAATTGCTAGGCCTTTAA
AGTCATCAAGCTTGTTTCCTCTGATGTTGAGGGGTAGTTACGTGCCCTTTGAGATCATAAGCCT
AGCATAATTGCAGCATGTTTCCAGAGCAAGTCATGACTATTAGCAGGAAACGAGATTAGTTACT
ACTCTGTTCTCCACTTCTGAGTAGTCGAGTAAACCGTGAGGTAATTCACAAGATGAGTTAGAGT
TTACACATTGTAGAGCATATAGGGGAGAAGAGCAAGGAAGAAGGCAATATGTCAGTTATTACCT
ATTAATGTGGAGATTATAGCTCTAAATTACCTTGAAAATCTCAAATGGCTTTATTCTACCAAAG
TCAGTCTAAACACTTCTGCCAGTGTTGCTTTCTTTCAAAGACTGGTATTAGCAACATTGAGCTA
AAAGTTCTAAATGCATGAATAGTTTTGAAAATGCAGACTCCTTAACTGCAAACTATTAAATTGT
GTCTTAAAAAAACTTCCATAGTGACCTGTCAGATGGATTGAATACCTTTC

hide sequence

Protein Sequences


Protein RefSeqs	NP_074044	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA79234	(Get FASTA)	NCBI Sequence Viewer
	EDL95011	(Get FASTA)	NCBI Sequence Viewer
	Q62720	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_074044 ⟸ NM_022853

- UniProtKB:

Q62720 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MGCWGRNRGRLLCMLLLTFMFMVLEVVVSRVTASLAMLSDSFHMLSDVLALVVALVAERFARRT
HATQKNTFGWIRAEVMGALVNAIFLTGLCFAILLEAVERFIEPHEMQQPLVVLSVGVAGLLVNV
LGLCLFHHHSGEGQGAGHGHSHGHGHGHLAKGARKAGRAGGEAGAPPGRAPDQEPDQEETNTLV
ANTSNSNGLKADQAEPEKLRSDDPVDVQVNGNLIQESDSLESEDNRAGQLNMRGVFLHVLGDAL
GSVIVVVNALVFYFSWKGCTEDDFCVNPCFPDPCKSSVELMNSTQAPMHEAGPCWVLYLDPTLC
IIMVCILLYTTYPLLKESALILLQTVPKQIDIKHLVKELRDVEGVEEVHELHVWQLAGSRIIAT
AHIKCEDPASYMQVAKTIKDVFHNHGIHATTIQPEFASVGSKSSVVPCELACRTQCALKQCCGT
RPQVHSGKEAEKAPTVSISCLELSENLEKKPRRTKAEGSVPAVVIEIKNVPNKQPESSL

hide sequence

RefSeq Acc Id:

ENSRNOP00000006340 ⟸ ENSRNOT00000006340

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q62720-F1-model_v2	AlphaFold	Q62720	1-507	view protein structure

Transcriptome

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

Promoters

RGD ID:

13699122

Promoter ID:

EPDNEW_R9647

Type:

initiation region

Name:

Slc30a1_1

Description:

solute carrier family 30 member 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	13	110,677,796 - 110,677,856	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:61918	AgrOrtholog
BioCyc Gene	G2FUF-16823	BioCyc
Ensembl Genes	ENSRNOG00000004749	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000006340	ENTREZGENE
	ENSRNOP00000006340.2	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000006340	ENTREZGENE
	ENSRNOT00000006340.5	UniProtKB/Swiss-Prot
Gene3D-CATH	1.20.1510.10	UniProtKB/Swiss-Prot
InterPro	Cation_efflux	UniProtKB/Swiss-Prot
	Cation_efflux_CTD_sf	UniProtKB/Swiss-Prot
	Cation_efflux_TMD_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:58976	UniProtKB/Swiss-Prot
NCBI Gene	58976	ENTREZGENE
PANTHER	FI23527P1	UniProtKB/Swiss-Prot
	ZINC TRANSPORTER 1	UniProtKB/Swiss-Prot
Pfam	Cation_efflux	UniProtKB/Swiss-Prot
PhenoGen	Slc30a1	PhenoGen
Superfamily-SCOP	SSF160240	UniProtKB/Swiss-Prot
	SSF161111	UniProtKB/Swiss-Prot
TIGR	TC211502
TIGRFAMs	CDF	UniProtKB/Swiss-Prot
UniProt	Q62720	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-24	Slc30a1	solute carrier family 30 member 1	Slc30a1	solute carrier family 30 (zinc transporter), member 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Slc30a1	solute carrier family 30 (zinc transporter), member 1		solute carrier family 30, member 1	Name updated	1299863	APPROVED
2002-06-10	Slc30a1	solute carrier family 30, member 1			Name updated	70584	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	localized to plasma membrane	61756
gene_domains	predicted protein contains 6 membrane-spanning domains, large intracellular loop, and a C-terminal tail	61756
gene_mutations_overexpression	cells with mutant phenotype have higher steady-state level of intracellular zinc	61756

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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