Slc39a4 (solute carrier family 39 member 4)

Gene: Slc39a4 (solute carrier family 39 member 4) Rattus norvegicus

Analyze

Symbol:

Slc39a4

Name:

solute carrier family 39 member 4

RGD ID:

1306701

Description:

Predicted to enable several functions, including monoatomic cation transmembrane transporter activity; zinc ion binding activity; and zinc ion sensor activity. Predicted to be involved in intracellular zinc ion homeostasis and zinc ion import across plasma membrane. Predicted to act upstream of or within cellular response to zinc ion starvation and zinc ion transport. Predicted to be located in apical plasma membrane and recycling endosome membrane. Human ortholog(s) of this gene implicated in acrodermatitis enteropathica. Orthologous to human SLC39A4 (solute carrier family 39 member 4); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC300051; MGC156705; solute carrier family 39 (zinc transporter), member 4; zinc transporter ZIP4; ZIP-4; zrt- and Irt-like protein 4

RGD Orthologs

Alliance Genes

More Info

more info ...

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
GRCr8	7	110,214,017 - 110,218,202 (-)	NCBI		GRCr8
mRatBN7.2	7	108,333,368 - 108,337,553 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	108,333,381 - 108,337,553 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	110,075,214 - 110,079,418 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	112,298,788 - 112,302,992 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	112,259,628 - 112,263,832 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	117,675,718 - 117,682,586 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	117,675,720 - 117,680,004 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	117,663,813 - 117,667,986 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	114,661,925 - 114,666,098 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	114,696,147 - 114,700,327 (-)	NCBI
Celera	7	104,683,583 - 104,687,756 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acrodermatitis (ISO)

acrodermatitis enteropathica (ISO,ISS)

Brown-Vialetto-Van Laere syndrome 2 (ISO)

epidermolysis bullosa simplex with muscular dystrophy (ISO)

genetic disease (ISO)

holoprosencephaly (ISO)

Neoplasm Metastasis (ISO)

Prenatal Injuries (ISO)

respiratory allergy (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

(1->4)-beta-D-glucan (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

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

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

4-nitrophenol (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (ISO)

actinomycin D (ISO)

ammonium chloride (ISO)

aristolochic acid A (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

cadmium dichloride (EXP)

calcitriol (ISO)

cannabidiol (ISO)

carbon nanotube (ISO)

cefaloridine (EXP)

cisplatin (ISO)

cobalt dichloride (ISO)

coumestrol (ISO)

cycloheximide (ISO)

cyclosporin A (ISO)

dextran sulfate (ISO)

dibutyl phthalate (EXP)

diethylstilbestrol (ISO)

dioxygen (ISO)

epoxiconazole (ISO)

ethyl methanesulfonate (ISO)

folic acid (ISO)

formaldehyde (ISO)

furan (EXP)

genistein (ISO)

hydrogen peroxide (ISO)

indole-3-methanol (EXP)

inulin (ISO)

irinotecan (EXP)

lead diacetate (EXP)

leflunomide (EXP)

Licochalcone B (ISO)

methimazole (EXP)

methyl beta-cyclodextrin (ISO)

methyl methanesulfonate (ISO)

N(4)-hydroxycytidine (ISO)

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

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

N-nitrosodiethylamine (ISO)

nickel dichloride (EXP)

nimesulide (EXP)

oxycodone (EXP)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (EXP,ISO)

pirinixic acid (ISO)

progesterone (ISO)

propiconazole (ISO)

quercetin (ISO)

rotenone (EXP,ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenate (ISO)

sucrose (ISO)

tetrachloromethane (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

triphenyl phosphate (EXP)

triptonide (ISO)

trovafloxacin (ISO)

valproic acid (EXP,ISO)

vinclozolin (EXP)

zinc atom (ISO)

zinc dichloride (EXP,ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

bicarbonate transport (IEA)

biological_process (ND)

cellular response to zinc ion starvation (IEA,ISO)

intracellular zinc ion homeostasis (IEA,ISO,ISS)

zinc ion import across plasma membrane (IBA,IEA)

zinc ion transmembrane transport (ISO,ISS)

Cellular Component

apical plasma membrane (IEA,ISO,ISS)

cytoplasmic vesicle (ISO,ISS)

plasma membrane (ISO,ISS)

recycling endosome membrane (IEA,ISO,ISS)

Molecular Function

identical protein binding (IEA,ISO,ISS)

metal ion binding (ISO)

monoatomic cation:bicarbonate symporter activity (IBA,IEA)

zinc ion binding (IEA,ISO)

zinc ion sensor activity (IEA,ISO,ISS)

zinc ion sequestering activity (IEA,ISO)

zinc ion transmembrane transporter activity (IBA,IEA,ISO,ISS)

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.	Identification of SLC39A4, a gene involved in acrodermatitis enteropathica.	Kury S, etal., Nat Genet. 2002 Jul;31(3):239-40. Epub 2002 Jun 17.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	GOA pipeline	RGD automated data pipeline
6.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
8.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:12477932	PMID:12801924	PMID:14612438	PMID:15358787	PMID:15489334	PMID:19530166	PMID:22242765	PMID:23013362	PMID:23376485	PMID:26702153

Genomics

Comparative Map Data

Slc39a4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	110,214,017 - 110,218,202 (-)	NCBI		GRCr8
mRatBN7.2	7	108,333,368 - 108,337,553 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	108,333,381 - 108,337,553 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	110,075,214 - 110,079,418 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	112,298,788 - 112,302,992 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	112,259,628 - 112,263,832 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	117,675,718 - 117,682,586 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	117,675,720 - 117,680,004 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	117,663,813 - 117,667,986 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	114,661,925 - 114,666,098 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	114,696,147 - 114,700,327 (-)	NCBI
Celera	7	104,683,583 - 104,687,756 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

SLC39A4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	144,412,414 - 144,416,844 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	144,409,742 - 144,416,844 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	145,637,798 - 145,642,228 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	145,608,606 - 145,613,081 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	145,608,606 - 145,613,081	NCBI
Celera	8	141,812,232 - 141,816,707 (-)	NCBI		Celera
Cytogenetic Map	8	q24.3	NCBI
HuRef	8	140,751,031 - 140,755,512 (-)	NCBI		HuRef
CHM1_1	8	145,676,089 - 145,680,570 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	145,582,227 - 145,586,657 (-)	NCBI		T2T-CHM13v2.0

Slc39a4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	76,496,583 - 76,501,579 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	76,496,583 - 76,501,584 (-)	Ensembl		GRCm39 Ensembl
GRCm38	15	76,612,383 - 76,618,506 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	76,612,383 - 76,617,384 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	76,442,813 - 76,447,282 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	76,439,638 - 76,444,107 (-)	NCBI		MGSCv36	mm8
Celera	15	78,105,998 - 78,110,467 (-)	NCBI		Celera
Cytogenetic Map	15	D3	NCBI
cM Map	15	36.16	NCBI

Slc39a4
(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_004955454	3,040,877 - 3,046,250 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955454	3,041,316 - 3,047,419 (-)	NCBI	ChiLan1.0	ChiLan1.0

SLC39A4
(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	7	161,903,143 - 161,908,026 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	8	137,432,188 - 137,437,027 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	141,178,792 - 141,183,565 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	144,169,089 - 144,173,517 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	144,169,089 - 144,173,517 (-)	Ensembl	panpan1.1		panPan2

SLC39A4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	13	37,833,073 - 37,838,304 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	13	37,833,156 - 37,838,522 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	13	37,794,803 - 37,799,894 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	13	38,307,751 - 38,312,842 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	13	38,308,739 - 38,312,970 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	13	37,999,570 - 38,004,661 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	13	38,108,215 - 38,113,309 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	13	38,584,583 - 38,589,678 (-)	NCBI		UU_Cfam_GSD_1.0

Slc39a4
(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_024405303	411,386 - 416,321 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	7,838,030 - 7,842,262 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936470	7,836,612 - 7,842,262 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC39A4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	372,660 - 378,516 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	372,681 - 378,519 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	464,005 - 469,123 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC39A4
(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	8	138,622,100 - 138,626,749 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	138,622,224 - 138,626,376 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	1,229,126 - 1,234,212 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc39a4
(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_004624735	12,434,169 - 12,438,510 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624735	12,433,024 - 12,438,406 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Slc39a4
6 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	413
Count of miRNA genes:	193
Interacting mature miRNAs:	216
Transcripts:	ENSRNOT00000040422, ENSRNOT00000071522
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.

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
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	924703	115097879	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	43747012	108555253	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	68938720	113886318	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	68938720	113886318	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	68938720	113886318	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	69736226	117455174	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	69736356	112729554	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	73829340	130221005	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	80221299	109401111	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	80221299	112308525	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	80221299	124373579	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	80221299	125221299	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	81737938	126737938	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	83153392	128153392	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	84257275	129257275	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	84257275	129257275	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	86983365	131983365	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	90482196	135012528	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	91281130	135012528	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	91412594	129807172	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	94811085	116738842	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	94811326	116294265	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	96670164	135012528	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	102297359	133492884	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	103146217	116738842	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	104603555	135012528	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	106571501	135012528	Rat

Markers in Region

AU041686

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	108,333,545 - 108,333,844 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	117,675,896 - 117,676,194	NCBI	Rnor6.0
Rnor_5.0	7	117,663,979 - 117,664,277	UniSTS	Rnor5.0
RGSC_v3.4	7	114,662,091 - 114,662,389	UniSTS	RGSC3.4
Celera	7	104,683,749 - 104,684,047	UniSTS
Cytogenetic Map	7	q34	UniSTS

RH131800

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	108,333,376 - 108,333,556 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	117,675,727 - 117,675,906	NCBI	Rnor6.0
Rnor_5.0	7	117,663,810 - 117,663,989	UniSTS	Rnor5.0
RGSC_v3.4	7	114,661,922 - 114,662,101	UniSTS	RGSC3.4
Celera	7	104,683,580 - 104,683,759	UniSTS
RH 3.4 Map	7	795.3	UniSTS
Cytogenetic Map	7	q34	UniSTS

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		15	15		15					9	11
Low		12	36	26	13	26			13	33	32
Below cutoff		26	6		6		8	10	61	2			8

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001077669	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765563	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765564	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC139605	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC127514	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000040422 ⟹ ENSRNOP00000047376

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	108,333,381 - 108,337,553 (-)	Ensembl
Rnor_6.0 Ensembl	7	117,675,720 - 117,680,004 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000071522 ⟹ ENSRNOP00000066561

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	108,333,381 - 108,337,553 (-)	Ensembl
Rnor_6.0 Ensembl	7	117,676,948 - 117,679,219 (-)	Ensembl

RefSeq Acc Id:

NM_001077669 ⟹ NP_001071137

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	110,214,017 - 110,218,202 (-)	NCBI
mRatBN7.2	7	108,333,368 - 108,337,553 (-)	NCBI
Rnor_6.0	7	117,675,730 - 117,679,903 (-)	NCBI
Rnor_5.0	7	117,663,813 - 117,667,986 (-)	NCBI
RGSC_v3.4	7	114,661,925 - 114,666,098 (-)	RGD
Celera	7	104,683,583 - 104,687,756 (-)	RGD

Sequence:

show sequence

CCCAGCTCCAGTCTGGCCCCAGGCAGTCCCAGCAGTCTCCTGCTAGCCCAGAAGCCAGCACCAC
TGCAGGGAACACTTTGGGAGCGTGAGGCATGATGCTCCCAAAGTCGCTCACACAGGGGCTCTTG
TTGGCGATGCTGGTGGGCACAGCAGCAATGGTCCAGCCCTATCACCTGCTCAGCCTACTCACCT
CGGGCCAGGGTGCTCTGGATCGAACGGCACTGGACGGCCTGTTAAATACGCTGGTGGCCCGTGT
GCACTGCACCGACGGGCCGTGTGAAAAGTGTCTGTCTGTGGAGACTGCCTTGGCTCTAGGCAAA
CCTGATAAGCCACAGCTTGCCCCAGAATCAGTCCTGGAGTCCAGATACATTACTTACCTCAGTG
CCGCCGCTGCCCTCTACCTCAACGACCCAGAGAAAACATGCAAGGACATCCGAGCTGGCCTCTT
GGCCTCTCATGTGGACGATTACCTGGCCAAACTGGAGAGTCCAGAGGCCATGACCCTGGGTCTG
AGCCAGCTACTGCAGAAGATTGAGGCCCATGATGCCAGCCAACCCACCAGGGAGGAGACCTGTG
TAGATGTTCCCCAACTGCTGGAGGAGGCTGAGGAAGCAGGGGTTTCCAGAAGCCCTGGCCTGGT
CTTGACAGCCTTGCTGGATCACGTCCTTAATGGATCCTGCTTCCAAGGCCTGCCTAGCCCTCAG
TACTTTGTGGACTTTGTGTTCAGGCAACTCAGTAGTAAGCCTCGCAATATCACGCTGCCCGAAT
TGGAGGATTTGATGCATCACCTTGGGGTGGGTGGAGAGGATCACAGTGACCATGGTGACCATGT
TGACCACAGTCATCTGGACAGGGAAGCCAACCACCAAGACTCTGAGCTCCATGCTACCCACAAC
AGCAGCTCCAGTGTATGGGACACGCTGTGCCTGAGTGCCAAAGATGTAATGGCTGTGTATGGGC
TATCTGAAGAGGCCGGGGTGAGCCCTCAGGCCTGGGCCCAACTGACCCCTGCCTTGGTCCAGCA
GCAGCTAAGTGAAGCCTGCAGCTCCAGTCCCATTATCCATGTACAGGACCAGCTCAGTCAAGCA
GAGAGGTATCTGTATGGCTCTCTGGCCACCCTGCTCATCTGCCTCTGCGCTGTGTTCGGTCTTC
TGCTGCTGACCTGTGCCAAATGCAGCACAGCCACCCACTACATCATGCAGACCTTCCTAAGCTT
GGCTGTGGGTGCACTCACAGGCGATGCTCTCCTGCACCTGATACCCAAGGTGCTGGGATTGCAC
ACGCATAGTGGAGAGGTTCACTCCCACGAGGAGGAGAGCATTGGTGGACAGTCCACCTGGCGCC
TGCTGGCTGTACTTGGAGGCTTCTACATTTTCTTCCTGTTTGAGAGCTTCTTCAACCTCTTATT
GCCCAGAGACCAGGATCATGAGAAAGATGGGCCTTGTAGCCACGGTGGGCACAGCCATGGAATA
TCACTGCAGCTATCACCCAGCAATCTCCGGCAATCCAAACAGCCCCATGAGAGCTCTCGCTCAG
ACTTGGTGACAGAGGAGACCCCGGAACTACTGAACCCAGACACCCGGCGACTGAGAGCAGAGCT
GAGAATGTTGCCCTATCTGATCACACTGGGTGACGCCGTGCACAACTTTGCTGATGGGCTCGCT
GTGGGCGCAGCCTTCTCATCCACATGGAAGACTGGGCTGGCCACCTCATTGGCAGTGTTCTGCC
ATGAGCTGCCTCACGAACTTGGGGACTTTGCTGCTCTGCTGCATGCCGGGCTGACTGTGAAACG
TGCGCTTCTGCTGAATCTGGCCTCAGCGCTCACAGCATTCGCTGGCCTCTACGTGGCTCTAGCA
GTCGGAGTAGGCGAGGAGGGCGAGACTTGGATTCTGGCGGTAGCCACTGGCCTCTTCCTTTACG
TGGCGCTCTGTGACATGCTCCCAGCCATGATGAATGTGCGGGACCAGCGGCCCTGGCTTCTTTT
CCTGCTCCACAACGTGGGTCTGCTGGGCGGCTGGACCATCCTGCTGCTGCTGTCATTGTACGAA
GACAGCATCACCTTCTGATGGCTCTGTCCCATTCCAGTCCTTGTCCCTGCCTGCTGATTCTGCT
TTACTGCCTTAATCCGTCTAACAGTTGGATCCACTACGGGTAGCTGGAGGGTTCAGCCTCATTT
CCCCTGCTCTGACTTCAATAAAGACTTGCCCATCTGCAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001071137	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	A0JPN2	(Get FASTA)	NCBI Sequence Viewer
	AAI27515	(Get FASTA)	NCBI Sequence Viewer
	EDM15958	(Get FASTA)	NCBI Sequence Viewer
	EDM15959	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000047376
	ENSRNOP00000047376.4
	ENSRNOP00000066561.3

RefSeq Acc Id:	NP_001071137 ⟸ NM_001077669
- Peptide Label:	precursor
- UniProtKB:	A0JPN2 (UniProtKB/Swiss-Prot), A0A0H2UHY4 (UniProtKB/TrEMBL), A6HSB3 (UniProtKB/TrEMBL), M0RAL0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLPKSLTQGLLLAMLVGTAAMVQPYHLLSLLTSGQGALDRTALDGLLNTLVARVHCTDGPCEKC LSVETALALGKPDKPQLAPESVLESRYITYLSAAAALYLNDPEKTCKDIRAGLLASHVDDYLAK LESPEAMTLGLSQLLQKIEAHDASQPTREETCVDVPQLLEEAEEAGVSRSPGLVLTALLDHVLN GSCFQGLPSPQYFVDFVFRQLSSKPRNITLPELEDLMHHLGVGGEDHSDHGDHVDHSHLDREAN HQDSELHATHNSSSSVWDTLCLSAKDVMAVYGLSEEAGVSPQAWAQLTPALVQQQLSEACSSSP IIHVQDQLSQAERYLYGSLATLLICLCAVFGLLLLTCAKCSTATHYIMQTFLSLAVGALTGDAL LHLIPKVLGLHTHSGEVHSHEEESIGGQSTWRLLAVLGGFYIFFLFESFFNLLLPRDQDHEKDG PCSHGGHSHGISLQLSPSNLRQSKQPHESSRSDLVTEETPELLNPDTRRLRAELRMLPYLITLG DAVHNFADGLAVGAAFSSTWKTGLATSLAVFCHELPHELGDFAALLHAGLTVKRALLLNLASAL TAFAGLYVALAVGVGEEGETWILAVATGLFLYVALCDMLPAMMNVRDQRPWLLFLLHNVGLLGG WTILLLLSLYEDSITF hide sequence

RefSeq Acc Id:

ENSRNOP00000066561 ⟸ ENSRNOT00000071522

RefSeq Acc Id:

ENSRNOP00000047376 ⟸ ENSRNOT00000040422

Protein Domains

Zinc transporter ZIP4 N-terminal Zinc transporter ZIP4/12 EF-hand

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0JPN2-F1-model_v2	AlphaFold	A0JPN2	1-656	view protein structure

Transcriptome

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

Promoters

RGD ID:

13695430

Promoter ID:

EPDNEW_R5953

Type:

multiple initiation site

Name:

Slc39a4_1

Description:

solute carrier family 39 member 4

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	117,679,894 - 117,679,954	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1306701	AgrOrtholog
BioCyc Gene	G2FUF-32917	BioCyc
Ensembl Genes	ENSRNOG00000014314	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000040422	ENTREZGENE
	ENSRNOT00000040422.6	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ENSRNOT00000071522.3	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7100017	IMAGE-MGC_LOAD
InterPro	ZIP	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZIP4_12_EF-hand	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZIP4_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:300051	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:156705	IMAGE-MGC_LOAD
NCBI Gene	300051	ENTREZGENE
PANTHER	SOLUTE CARRIER FAMILY 39	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZINC TRANSPORTER ZIP4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	EF-hand_Zip	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Zip	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZIP4_domain	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Slc39a4	PhenoGen
RatGTEx	ENSRNOG00000014314	RatGTEx
UniProt	A0A0H2UHY4	ENTREZGENE, UniProtKB/TrEMBL
	A0JPN2	ENTREZGENE
	A6HSB3	ENTREZGENE, UniProtKB/TrEMBL
	M0RAL0	ENTREZGENE, UniProtKB/TrEMBL
	S39A4_RAT	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-09	Slc39a4	solute carrier family 39 member 4	Slc39a4	solute carrier family 39 (zinc transporter), member 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Slc39a4	solute carrier family 39 (zinc transporter), member 4	Slc39a4_predicted	solute carrier family 39 (zinc transporter), member 4 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Slc39a4_predicted	solute carrier family 39 (zinc transporter), member 4 (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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Imported Disease Annotations - MGI

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