Vamp4 (vesicle-associated membrane protein 4)

Gene: Vamp4 (vesicle-associated membrane protein 4) Rattus norvegicus

Analyze

Symbol:

Vamp4

Name:

vesicle-associated membrane protein 4

RGD ID:

1309753

Description:

Involved in regulation of synaptic vesicle endocytosis and synaptic vesicle to endosome fusion. Predicted to be located in Golgi apparatus; cell surface; and phagocytic vesicle. Predicted to be part of SNARE complex. Predicted to be active in presynaptic endosome membrane and trans-Golgi network. Orthologous to human VAMP4 (vesicle associated membrane protein 4); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC364033

RGD Orthologs

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):	VAMP4 (vesicle associated membrane protein 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Vamp4 (vesicle-associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Vamp4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	VAMP4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	VAMP4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Vamp4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	VAMP4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	VAMP4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Vamp4 (vesicle associated membrane protein 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	DPP10 (dipeptidyl peptidase like 10)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	VAMP4 (vesicle associated membrane protein 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Vamp4 (vesicle-associated membrane protein 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	vamp4 (vesicle-associated membrane protein 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	SNC1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	SNC2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	vamp4	Alliance	DIOPT (Ensembl Compara\|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
GRCr8	13	77,453,135 - 77,475,909 (+)	NCBI		GRCr8
mRatBN7.2	13	74,919,872 - 74,942,791 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	74,919,880 - 74,933,686 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	77,495,346 - 77,520,525 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	78,802,728 - 78,825,319 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	76,062,597 - 76,085,190 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	80,460,699 - 80,483,597 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	80,460,694 - 80,483,600 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	85,352,779 - 85,375,559 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	78,247,189 - 78,269,770 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	78,261,180 - 78,280,664 (+)	NCBI
Celera	13	74,670,256 - 74,692,771 (+)	NCBI		Celera
Cytogenetic Map	13	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

1q24 Deletion Syndrome (ISO)

autoimmune lymphoproliferative syndrome (ISO)

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

parathyroid carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (ISO)

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2-hydroxypropanoic acid (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

amitrole (EXP)

arsenite(3-) (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

carmustine (ISO)

CGP 52608 (ISO)

cisplatin (ISO)

cobalt dichloride (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dicrotophos (ISO)

disodium selenite (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

flutamide (EXP)

formaldehyde (ISO)

FR900359 (ISO)

hexadecanoic acid (ISO)

indometacin (ISO)

methapyrilene (EXP)

methidathion (ISO)

methyl methanesulfonate (ISO)

methylazoxymethanol (ISO)

methylmercury chloride (ISO)

niclosamide (ISO)

nicotine (ISO)

oleic acid (ISO)

pentanal (ISO)

phenobarbital (ISO)

rac-lactic acid (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

Soman (EXP)

sulfadimethoxine (EXP)

temozolomide (ISO)

thioacetamide (EXP)

triptonide (ISO)

tunicamycin (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to type II interferon (ISO)

endocytic recycling (ISO)

Golgi ribbon formation (IEA)

Golgi to plasma membrane protein transport (ISO)

neurotransmitter receptor transport, endosome to postsynaptic membrane (IDA,IMP)

regulation of Golgi to plasma membrane protein transport (ISO)

regulation of synaptic vesicle endocytosis (EXP,IDA,IMP)

SNARE complex assembly (IBA,ISO)

synaptic vesicle to endosome fusion (IDA,IEP,IMP)

vesicle-mediated transport in synapse (IDA,IMP)

Cellular Component

cell surface (ISO)

glutamatergic synapse (IDA,IMP)

Golgi apparatus (ISO)

phagocytic vesicle (ISO)

presynaptic endosome membrane (ISO)

SNARE complex (IBA,ISO)

trans-Golgi network (IBA,ISO)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	The vSNAREs VAMP2 and VAMP4 control recycling and intracellular sorting of post-synaptic receptors in neuronal dendrites.	Bakr M, etal., Cell Rep. 2021 Sep 7;36(10):109678. doi: 10.1016/j.celrep.2021.109678.
2.	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.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	VAMP4 Is an Essential Cargo Molecule for Activity-Dependent Bulk Endocytosis.	Nicholson-Fish JC, etal., Neuron. 2015 Dec 2;88(5):973-84. doi: 10.1016/j.neuron.2015.10.043. Epub 2015 Nov 19.
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Evidence for early endosome-like fusion of recently endocytosed synaptic vesicles.	Rizzoli SO, etal., Traffic. 2006 Sep;7(9):1163-76.

Additional References at PubMed

PMID:12682051	PMID:15689499	PMID:18227281	PMID:18321981	PMID:18713833	PMID:19144319	PMID:19620288	PMID:20582536	PMID:21151919	PMID:22406549	PMID:23677696	PMID:23716698
PMID:32532887

Genomics

Comparative Map Data

Vamp4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	13	77,453,135 - 77,475,909 (+)	NCBI		GRCr8
mRatBN7.2	13	74,919,872 - 74,942,791 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	74,919,880 - 74,933,686 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	77,495,346 - 77,520,525 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	78,802,728 - 78,825,319 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	76,062,597 - 76,085,190 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	80,460,699 - 80,483,597 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	80,460,694 - 80,483,600 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	85,352,779 - 85,375,559 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	78,247,189 - 78,269,770 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	78,261,180 - 78,280,664 (+)	NCBI
Celera	13	74,670,256 - 74,692,771 (+)	NCBI		Celera
Cytogenetic Map	13	q22	NCBI

VAMP4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	171,700,160 - 171,742,065 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	171,700,160 - 171,742,074 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	171,669,300 - 171,711,205 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	169,938,783 - 169,977,837 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	144,778,698 - 144,820,780 (-)	NCBI		Celera
Cytogenetic Map	1	q24.3	NCBI
HuRef	1	142,893,046 - 142,935,123 (-)	NCBI		HuRef
CHM1_1	1	173,091,387 - 173,133,527 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	171,056,627 - 171,098,537 (-)	NCBI		T2T-CHM13v2.0

Vamp4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	162,398,084 - 162,426,651 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	162,398,084 - 162,426,653 (+)	Ensembl		GRCm39 Ensembl
GRCm38	1	162,570,515 - 162,599,082 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	162,570,515 - 162,599,084 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	164,500,959 - 164,529,209 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	164,407,503 - 164,435,753 (+)	NCBI		MGSCv36	mm8
Celera	1	165,015,226 - 165,045,414 (+)	NCBI		Celera
Cytogenetic Map	1	H2.1	NCBI
cM Map	1	70.29	NCBI

Vamp4
(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	12,223,736 - 12,260,317 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955406	12,223,736 - 12,260,506 (-)	NCBI	ChiLan1.0	ChiLan1.0

VAMP4
(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	1	78,013,280 - 78,058,507 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	77,687,698 - 77,732,898 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	147,192,001 - 147,233,945 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	150,903,134 - 150,944,815 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	150,903,134 - 150,944,815 (-)	Ensembl	panpan1.1		panPan2

VAMP4
(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	27,278,200 - 27,303,499 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	7	27,278,231 - 27,302,225 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	7	26,797,085 - 26,827,670 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	7	27,078,744 - 27,107,216 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	7	27,051,313 - 27,107,216 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	7	26,900,757 - 26,958,730 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	7	26,935,355 - 26,993,045 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	7	27,207,418 - 27,232,436 (+)	NCBI		UU_Cfam_GSD_1.0

Vamp4
(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	97,634,092 - 97,669,945 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936481	15,480,879 - 15,516,945 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936481	15,480,865 - 15,515,851 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VAMP4
(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	114,138,330 - 114,174,979 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	114,138,350 - 114,174,996 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	125,606,175 - 125,638,921 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VAMP4
(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	57,381,143 - 57,421,886 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	25	57,384,757 - 57,421,893 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666055	59,006,290 - 59,051,034 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vamp4
(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 1.0	NW_004624771	9,986,835 - 10,034,112 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Vamp4
138 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	664
Count of miRNA genes:	249
Interacting mature miRNAs:	341
Transcripts:	ENSRNOT00000004243
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
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	101056920	Rat
1581554	Pur11	Proteinuria QTL 11			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	5994833	77046787	Rat
1581573	Uae36	Urinary albumin excretion QTL 36			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	5994833	77046787	Rat
1581570	Eae17	Experimental allergic encephalomyelitis QTL 17	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	13	8897350	101631289	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	20605871	101339738	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	30395351	101056920	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	13	31241331	93395974	Rat
2303563	Bw89	Body weight QTL 89	6		body mass (VT:0001259)	body weight (CMO:0000012)	13	32284471	77284471	Rat
61340	Bp25	Blood pressure QTL 25	4.2	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	34535218	79535218	Rat
12879477	Bp401	Blood pressure QTL 401			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	37262092	82262092	Rat
61349	Bp31	Blood pressure QTL 31	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	37374509	82374509	Rat
70220	Bp55	Blood pressure QTL 55	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	37374509	82374509	Rat
4889861	Pur29	Proteinuria QTL 29	13.8	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	37415584	80753406	Rat
1331750	Bp220	Blood pressure QTL 220	2.98		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	37415584	82415584	Rat
1549897	Stresp12	Stress response QTL 12	3.35		stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	13	38433408	83433408	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39754544	84754544	Rat
12879444	Bp397	Blood pressure QTL 397			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45049404	90049404	Rat
12879471	Bp398	Blood pressure QTL 398			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45514719	90514719	Rat
12879441	Bp396	Blood pressure QTL 396			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45699983	90699983	Rat
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	46088046	91088046	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	46197976	84753113	Rat
1641901	Alcrsp6	Alcohol response QTL 6			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	13	52362171	97362171	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	56056920	101056920	Rat
724564	Uae11	Urinary albumin excretion QTL 11	5.7		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	13	59492522	77046890	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	59874408	85581182	Rat
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
8655951	Rf63	Renal function QTL 63	12.2		blood urea nitrogen amount (VT:0005265)	plasma urea nitrogen level (CMO:0000586)	13	69060519	77046890	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	69060519	86800898	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	69060519	86800898	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	69060519	86800898	Rat
11530006	Niddm72	Non-insulin dependent diabetes mellitus QTL 72		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	74023918	80753406	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	74023918	97213863	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	74862117	85581182	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	74862117	101339893	Rat

Markers in Region

RH134702

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	74,942,533 - 74,942,730 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	80,483,340 - 80,483,536	NCBI	Rnor6.0
Rnor_5.0	13	85,375,420 - 85,375,616	UniSTS	Rnor5.0
RGSC_v3.4	13	78,269,639 - 78,269,835	UniSTS	RGSC3.4
Celera	13	74,692,640 - 74,692,836	UniSTS
RH 3.4 Map	13	456.2	UniSTS
Cytogenetic Map	13	q22	UniSTS

RH139431

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	74,926,254 - 74,926,403 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	80,467,061 - 80,467,209	NCBI	Rnor6.0
Rnor_5.0	13	85,359,141 - 85,359,289	UniSTS	Rnor5.0
RGSC_v3.4	13	78,253,360 - 78,253,508	UniSTS	RGSC3.4
Celera	13	74,676,427 - 74,676,575	UniSTS
RH 3.4 Map	13	455.4	UniSTS
Cytogenetic Map	13	q22	UniSTS

RH139439

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	74,939,042 - 74,939,287 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	80,479,849 - 80,480,093	NCBI	Rnor6.0
Rnor_5.0	13	85,371,929 - 85,372,173	UniSTS	Rnor5.0
RGSC_v3.4	13	78,266,148 - 78,266,392	UniSTS	RGSC3.4
Celera	13	74,689,149 - 74,689,393	UniSTS
RH 3.4 Map	13	456.7	UniSTS
Cytogenetic Map	13	q22	UniSTS

RH139631

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	74,939,078 - 74,939,287 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	80,479,885 - 80,480,093	NCBI	Rnor6.0
Rnor_5.0	13	85,371,965 - 85,372,173	UniSTS	Rnor5.0
RGSC_v3.4	13	78,266,184 - 78,266,392	UniSTS	RGSC3.4
Celera	13	74,689,185 - 74,689,393	UniSTS
RH 3.4 Map	13	455.4	UniSTS
Cytogenetic Map	13	q22	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	6	14	4	18	4			74	31	41	11
Low		37	43	37	1	37	8	11		4			8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001108856	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250184	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090952	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090953	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063272518	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005492263	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000004243 ⟹ ENSRNOP00000004243

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	80,460,890 - 80,483,471 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000076324 ⟹ ENSRNOP00000068349

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	74,919,880 - 74,926,159 (+)	Ensembl
Rnor_6.0 Ensembl	13	80,464,348 - 80,467,272 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000076601

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	80,460,786 - 80,483,600 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000076922 ⟹ ENSRNOP00000068049

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	74,919,883 - 74,933,686 (+)	Ensembl
Rnor_6.0 Ensembl	13	80,460,694 - 80,479,449 (+)	Ensembl

RefSeq Acc Id:

NM_001108856 ⟹ NP_001102326

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,320 - 77,475,901 (+)	NCBI
mRatBN7.2	13	74,920,083 - 74,942,665 (+)	NCBI
Rnor_6.0	13	80,460,890 - 80,483,471 (+)	NCBI
Rnor_5.0	13	85,352,779 - 85,375,559 (+)	NCBI
RGSC_v3.4	13	78,247,189 - 78,269,770 (+)	RGD
Celera	13	74,670,256 - 74,692,771 (+)	RGD

Sequence:

show sequence

CCCCTGCCTACCGCCCCCAACGTCCGCTGGGGCTGGGAGCTGGCCTGCGCGAGGGCCGGGTGGT
GGATACTTATTCTGTTGGGAAATACAGCAAGAGTATTTGTGAGCAGAAAGTATGCCTCCCAAGT
TCAAGCGCCACCTAAATGACGATGACGTCACTGGGTCTGTGAAAAGTGAGAGGAGAAATCTTTT
GGAAGATGATTCAGATGAAGAAGAGGACTTTTTTCTACGGGGACCATCTGGACCAAGATTTGGA
CCCAGAAACGATAAAATTAAGCATGTTCAGAATCAGGTGGACGAAGTTATTGATGTAATGCAAG
AGAATATTACCAAGGTAATTGAAAGAGGAGAGAGGCTAGATGAACTACAGGACAAATCAGAAAG
CTTATCGGATAATGCAACTGCTTTCAGCAACAGATCCAAACAGCTTCGAAGGCAAATGTGGTGG
CGTGGATGCAAAATAAAAGCCATCATGGCTTTGGCTGCAGCTATCCTTTTGCTAATGATTATCA
CTCAGATCATCCTGCACTTGAAAAAATGAAGTTTTACCACCATCAAAACTATCTTTATTTAACA
ACAGTGAAGATCAACAGAAAAATCCAAGTAGCTTTGCTAATGTTAGTTGATGCCCAGTGAAATC
AGGTCACCACTGCCGTGCCTGACGCGTGCCCTGTGGTTTGTCTGTAACAGAGCCTCTTCCCTTG
CAGCAGTCTGATGAGTGGGCTCCTTCTCCATCATAACCCAGTGTTGTTGTTACCTGTGGTCCTA
ACAAAGCTCATTGGGAATTGTCCCAAAACTTTATAAACTGGGAAACGTATTGATGAAAAGAAGG
TCCAGTGTTGATGATGAGCTTGTTTTAAGTGGAGAAAAGGTAATCACATCAGGTACAGAGGTGC
ATGATGGCGTCCTGCCGACTGTCGTTTCAGTTCACTCCCGGGTTCTGTGTTAGGAAGTAATGCT
GGCCTTTTGAAAGCAGAAACTGGCACCTTTCTGCTCTATATGGCATGTGGGTGCCCTGTGAATG
CAAACGCACACATAGGGTGAGGCTCAGATGTGACAAAAGCCTGACCTCTGTCCTTGCCACTTAA
CACCTGTTTTATGTCCTGTTGGCACTGTAGCCCAAACAGACTTGTATTTACTTTATGGCTAGAA
AATAAGCAAGAAGTTTTTTTCAGTGTTGAAAACAAATGTCATTAGATGTTCTTAGTTGTACCGA
GTCAGAGTGTTCCTAAGTTAGGGACTGGACTACTAATCAGATTTTGTGTTTTCACATAGAAAGG
TTATCGGAGTCAGTTTACTTTTCTGTGAGTGATAGTAAGAGCGTGAGTCAGTTGAAACACATTG
GGAGGGGTTGCCAAATATCAGCATAAAGACAGTGGCTCAGAAGAGGCAGAAAGGGCCCTCTTAG
TCCATAAAATGTGCCCTCCTTAAACTGATGTGGTCTGAGTCTATCTTGTGTGTCTTGGGATTTT
TGGTTGGTGGGTGGGTTGGTTGGTTGGTTAGTTGGTTGGTTTTAGTTTTTTTGAAACACGGTCT
CACTGTGTGACCCAGACTGGCCTCAGATGCACAGATGCATCGGCCTCCCAAGTGCTGGGATTGG
AGGTATGTCCCACCACACCCTGTAGCCTTTTTCTTTTTGGTCAAAGAAAGAATCCTTGGGCTCA
AGTGGTCTTTGCAACTTAGCCCCAGAAGTAGCTAAGACTACATGTGGGCACCAGCATGTGCTGA
TAGACCTTCTTTTAAAGCCTGATGTTAGTCTTACTTGGATATTTATTTTCATATGTCAAGCAGA
ATAAAGGGTGGGACACATTTTTATTCTGGCTATTGTTTCATTTCACAAGCTACTTAGAACAAGT
TAGCAGGGATGAGAAGAAAAACATTGCTAGTCCAGTTGGCTTCAGCTTATAAAGCAAGGGCCAT
ACCATGTTGTGTCCCTCAACTCCAAGTCCCTGTGTGTGTGGCTGTGTCCCAAAGTGACACCGTG
CTGGTGGTGTGTAAGTGAGGGCTGATTTCCAGTGTGCGCTGAGAGATGACATGATTGAGGTAGG
TGAACCTAGAGATAAAAGGGTTCTTATAATTGAATATAGAAAACTTCTGGTTTGACGGTGTTAC
ATTAGGTTCTTTTCACTTGAAAAGATTTTGAAATAAAATCACATATTTTAAAGCTGTAAATTGT
ATATGTCTGAGGATTTAGTAAAATGTCAGAGATCAATCTATAAGAAAATTTAAATATTGTTTTT
ATATCTTAGTTGTCTGTCATTATTTTAGATCCCACAATCCCTAATTTAACCATTTCGGCAAGTG
CCTTTGACACTTAAGGAGTATTGTGGGAGATGAGCAAATGTAGGTGCCACACCCCGTTTCCTGG
CTTCTCAATTCCTCGTGACAGTATATGTTTTACAGTGCTACAAAGTTCAGTCCTTTGTGTTCAT
GTGAGATTGTACTGTAGCCTTTCCATAGTAAACAGCAAAATAAACCATTTGCAGAAAATG

hide sequence

RefSeq Acc Id:

XM_006250184 ⟹ XP_006250246

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,135 - 77,475,909 (+)	NCBI
mRatBN7.2	13	74,919,872 - 74,942,673 (+)	NCBI
Rnor_6.0	13	80,460,699 - 80,483,471 (+)	NCBI
Rnor_5.0	13	85,352,779 - 85,375,559 (+)	NCBI

Sequence:

show sequence

GGGGCGCTGCAGCAGAGCGGAGCGGTGGCGGGTCTGTGCCCTCGGCCTTCCCCCTCCCACCCTC
CTTCCTCAGCTTCCCGCTCCCTCCCCCGCCCGCCCTGCGCTGCCAGCAGGGACTGCTGCCCGGA
GCTCTTCGGAGACCTCAGGTGGTGGATACTTATTCTGTTGGGAAATACAGCAAGAGTATTTGTG
AGCAGAAAGTATGCCTCCCAAGTTCAAGCGCCACCTAAATGACGATGACGTCACTGGGTCTGTG
AAAAGTGAGAGGAGAAATCTTTTGGAAGATGATTCAGATGAAGAAGAGGACTTTTTTCTACGGG
GACCATCTGGACCAAGATTTGGACCCAGAAACGATAAAATTAAGCATGTTCAGAATCAGGTGGA
CGAAGTTATTGATGTAATGCAAGAGAATATTACCAAGGTAATTGAAAGAGGAGAGAGGCTAGAT
GAACTACAGGACAAATCAGAAAGCTTATCGGATAATGCAACTGCTTTCAGCAACAGATCCAAAC
AGCTTCGAAGGCAAATGTGGTGGCGTGGATGCAAAATAAAAGCCATCATGGCTTTGGCTGCAGC
TATCCTTTTGCTAATGATTATCATTCTTATAGTTGTGAAATACCGTACTTGATTTGATGACAGA
GATCCTCATTAAACAAGATCTGGGACAATAACATTTAAAGATTGCTGCATAATTTAAATGAAAA
CCTATGTATATAATTTTCAAATTTTCTTTTTCAAGAAACTAAAAGGCAAGTACCAATTCAAATT
GGAGCATTGAGAATACCTAATAATCATCTTTCCAACTAACAAAATGTGTTTTGAATAAGTATAT
TTGATGCAAAAATAACTCTATTTTGCTTTATTCCAAGGATCTAATTTGAAACTAGATACTTGCC
AGTTGTTGTTTGTATATATAGTTAAACACTGATGACGACATCCCATACTTGTGTTTTAGTGGCA
TTAAAAACAGTATTGCATCAAAGTGAGAGTCAGTCTGGTATGAGGAAGCCTATGCAGAGTCCTG
ACTCTGCTGAGAGAGCTGCGTAACCATCCTGTGCGTATTGCAGGAGTGCCACCCCCTTCTCACA
TTGCAGTTGCTTCACAGGCTGTCCCCTGTGTACGGATTAACTAAAGCCAAGCATTGTAAATGTT
TCTGCCTTCAGCTCTACCCGAAACATTCCAGTAAACCTGACTGTATAAGAAAACACGTGGTAAT
CTTTTGGTATTTGGATTTTGAAAATGGGAAATTTAAACAGTGTGAAAATCGTAATATGGTACAT
AAAACTGGAGATAATAAACTCACTGGAGAATGTCGTTGGAGTGTTGAAAATGAACAATATGTAG
CTCCCAGTCTTGGTCCAGTTGGTTGTCAGTTAAACTACAATAAAAAGGGACTAATTCTGATGTG
AGTAAGTGAAATCTGCAGGTAATTTTTCCTGGTTTAATTTTTGTTAGTGGTTTCCCCTCTTTAA
CTAACCCTGTGCCAGAAGTGCTGACGTTAGCAGTCGAGCGCCTCCAGTGCCGCATTCCTGTCTG
GCTGACGCTCTTGAGGAGACAGATGTTGCCAGTGTTCAGACAGCTCGTGGCAGTAAGTAGCCAA
CTGTCAGGAGCATAGGTGACCTCACATAATCAGTCAGTAACTGACACCTAGGGGCCACCATTGA
CACCAGCCTGCTCCTATAACAAGATGTGTTCACTGTAGAGAGTGTCGGCCCCTTAATATTGTTT
AAACAAAGTGAAGAGGCCGCCTCATGTACAGGGGAAAGGCAGAGACTGCAGGGACTCGTTCACG
TGGACGTCTCAAGTTAGAAATCGAGTTCACAGGGGTGGCCATTATATGATGGGGGATGGGGGGT
AATGGTCCTGTATAATAGATATTACTTTTTGTGATCATTTTAATTCAGATGTGTAGAACAATTT
GGATGTTTCTTTGTTTAATTCTACAATGGTTAATATTAACAGACAAAATGTTTACAATGGAAAG
AAATTTGAAAGGGTGGAAGCTAGATTCAGTGATATCCTAGACAAGGTCTGAATATGATTCCTGG
AGCTTCCAGTTTGTTGTATCCTATGGAAAATCGACTCTGGCCTTTTCAGTGCTTGTCAGTTCTG
TACACATCCAGCATCTGATGTGTTGGGTTTTTTCCTTAAAATGACTCCAAATTTCCAATCTTCT
TTTAATAAAGTATGCCACTTTTAAAGAAATAATTATAAAATCATAGAATTATAAAATTAATTTT
AAAATATTAAGTATAAAAATTTATATTATTTAACTACTCATATATATAGTTGTTTGTATTTAAA
TTTATCGCTTCTGAGGAAGCCATGTTGGTATGGGACTCAGGATTTTACAGCAGTGTTGGCTTCA
ACCCAGCTTATCGCTTTGCCCCTTTTGATCTTACATAATCCTGAGACCTTAAAATGACATTGAT
GTGAAACACTGGAAATGTGGGTGTTTCGACAATTAGAAGCTGAGAAGATGTGTGATAGCTCGCA
CCTGTAATCCCCGTTCTATGAGCACTGAAGTAGGAAGGTTTCCCTGATTTTGAAGCCGTTCTAG
GCTTTATGGTGTGTTCTGGACTAGCCTGGGCTATAGAGTAAGAACCTGTCTCTTTACAATAATA
ATAAAAGCCAACCAAGCAAACAGTCAAAAGAGAAGCCATTGTCAGATTGACGCCAGGCCTACCT
TCATTCCCTCCTTAATCATTCTTTTTCTCATTCAGCTCAGATCATCCTGCACTTGAAAAAATGA
AGTTTTACCACCATCAAAACTATCTTTATTTAACAACAGTGAAGATCAACAGAAAAATCCAAGT
AGCTTTGCTAATGTTAGTTGATGCCCAGTGAAATCAGGTCACCACTGCCGTGCCTGACGCGTGC
CCTGTGGTTTGTCTGTAACAGAGCCTCTTCCCTTGCAGCAGTCTGATGAGTGGGCTCCTTCTCC
ATCATAACCCAGTGTTGTTGTTACCTGTGGTCCTAACAAAGCTCATTGGGAATTGTCCCAAAAC
TTTATAAACTGGGAAACGTATTGATGAAAAGAAGGTCCAGTGTTGATGATGAGCTTGTTTTAAG
TGGAGAAAAGGTAATCACATCAGGTACAGAGGTGCATGATGGCGTCCTGCCGACTGTCGTTTCA
GTTCACTCCCGGGTTCTGTGTTAGGAAGTAATGCTGGCCTTTTGAAAGCAGAAACTGGCACCTT
TCTGCTCTATATGGCATGTGGGTGCCCTGTGAATGCAAACGCACACATAGGGTGAGGCTCAGAT
GTGACAAAAGCCTGACCTCTGTCCTTGCCACTTAACACCTGTTTTATGTCCTGTTGGCACTGTA
GCCCAAACAGACTTGTATTTACTTTATGGCTAGAAAATAAGCAAGAAGTTTTTTTCAGTGTTGA
AAACAAATGTCATTAGATGTTCTTAGTTGTACCGAGTCAGAGTGTTCCTAAGTTAGGGACTGGA
CTACTAATCAGATTTTGTGTTTTCACATAGAAAGGTTATCGGAGTCAGTTTACTTTTCTGTGAG
TGATAGTAAGAGCGTGAGTCAGTTGAAACACATTGGGAGGGGTTGCCAAATATCAGCATAAAGA
CAGTGGCTCAGAAGAGGCAGAAAGGGCCCTCTTAGTCCATAAAATGTGCCCTCCTTAAACTGAT
GTGGTCTGAGTCTATCTTGTGTGTCTTGGGATTTTTGGTTGGTGGGTGGGTTGGTTGGTTGGTT
AGTTGGTTGGTTTTAGTTTTTTTGAAACACGGTCTCACTGTGTGACCCAGACTGGCCTCAGATG
CACAGATGCATCGGCCTCCCAAGTGCTGGGATTGGAGGTATGTCCCACCACACCCTGTAGCCTT
TTTCTTTTTGGTCAAAGAAAGAATCCTTGGGCTCAAGTGGTCTTTGCAACTTAGCCCCAGAAGT
AGCTAAGACTACATGTGGGCACCAGCATGTGCTGATAGACCTTCTTTTAAAGCCTGATGTTAGT
CTTACTTGGATATTTATTTTCATATGTCAAGCAGAATAAAGGGTGGGACACATTTTTATTCTGG
CTATTGTTTCATTTCACAAGCTACTTAGAACAAGTTAGCAGGGATGAGAAGAAAAACATTGCTA
GTCCAGTTGGCTTCAGCTTATAAAGCAAGGGCCATACCATGTTGTGTCCCTCAACTCCAAGTCC
CTGTGTGTGTGGCTGTGTCCCAAAGTGACACCGTGCTGGTGGTGTGTAAGTGAGGGCTGATTTC
CAGTGTGCGCTGAGAGATGACATGATTGAGGTAGGTGAACCTAGAGATAAAAGGGTTCTTATAA
TTGAATATAGAAAACTTCTGGTTTGACGGTGTTACATTAGGTTCTTTTCACTTGAAAAGATTTT
GAAATAAAATCACATATTTTAAAGCTGTAAATTGTATATGTCTGAGGATTTAGTAAAATGTCAG
AGATCAATCTATAAGAAAATTTAAATATTGTTTTTATATCTTAGTTGTCTGTCATTATTTTAGA
TCCCACAATCCCTAATTTAACCATTTCGGCAAGTGCCTTTGACACTTAAGGAGTATTGTGGGAG
ATGAGCAAATGTAGGTGCCACACCCCGTTTCCTGGCTTCTCAATTCCTCGTGACAGTATATGTT
TTACAGTGCTACAAAGTTCAGTCCTTTGTGTTCATGTGAGATTGTACTGTAGCCTTTCCATAGT
AAACAGCAAAATAAACCATTTGCAGAAAATG

hide sequence

RefSeq Acc Id:

XM_006250186 ⟹ XP_006250248

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,135 - 77,475,909 (+)	NCBI
mRatBN7.2	13	74,919,878 - 74,942,791 (+)	NCBI
Rnor_6.0	13	80,460,707 - 80,483,597 (+)	NCBI
Rnor_5.0	13	85,352,779 - 85,375,559 (+)	NCBI

Sequence:

show sequence

GCAGCAGAGCGGAGCGGTGGCGGGTCTGTGCCCTCGGCCTTCCCCCTCCCACCCTCCTTCCTCA
GCTTCCCGCTCCCTCCCCCGCCCGCCCTGCGCTGCCAGCAGGGACTGCTGCCCGGAGCTCTTCG
GAGACCTCAGGTGGTGGATACTTATTCTGTTGGGAAATACAGCAAGAGTATTTGTGAGCAGAAA
GTATGCCTCCCAAGTTCAAGCGCCACCTAAATGACGATGACGTCACTGGGTCTGTGAAAAGTGA
GAGGAGAAATCTTTTGGAAGATGATTCAGATGAAGAAGAGGACTTTTTTCTACGGGGACCATCT
GGACCAAGATTTGGACCCAGAAACGATAAAATTAAGCATGTTCAGAATCAGGTGGACGAAGTTA
TTGATGTAATGCAAGAGAATATTACCAAGGTAATTGAAAGAGGAGAGAGGCTAGATGAACTACA
GGACAAATCAGAAAGCTTATCGGATAATGCAACTGCTTTCAGCAACAGATCCAAACAGCTTCGA
AGGCAAATGTGGTGGCGTGGATGCAAAATAAAAGCCATCATGGCTTTGGCTGCAGCTATCCTTT
TGCTAATGATTATCACTCAGATCATCCTGCACTTGAAAAAATGAAGTTTTACCACCATCAAAAC
TATCTTTATTTAACAACAGTGAAGATCAACAGAAAAATCCAAGTAGCTTTGCTAATGTTAGTTG
ATGCCCAGTGAAATCAGGTCACCACTGCCGTGCCTGACGCGTGCCCTGTGGTTTGTCTGTAACA
GAGCCTCTTCCCTTGCAGCAGTCTGATGAGTGGGCTCCTTCTCCATCATAACCCAGTGTTGTTG
TTACCTGTGGTCCTAACAAAGCTCATTGGGAATTGTCCCAAAACTTTATAAACTGGGAAACGTA
TTGATGAAAAGAAGGTCCAGTGTTGATGATGAGCTTGTTTTAAGTGGAGAAAAGGTAATCACAT
CAGGTACAGAGGTGCATGATGGCGTCCTGCCGACTGTCGTTTCAGTTCACTCCCGGGTTCTGTG
TTAGGAAGTAATGCTGGCCTTTTGAAAGCAGAAACTGGCACCTTTCTGCTCTATATGGCATGTG
GGTGCCCTGTGAATGCAAACGCACACATAGGGTGAGGCTCAGATGTGACAAAAGCCTGACCTCT
GTCCTTGCCACTTAACACCTGTTTTATGTCCTGTTGGCACTGTAGCCCAAACAGACTTGTATTT
ACTTTATGGCTAGAAAATAAGCAAGAAGTTTTTTTCAGTGTTGAAAACAAATGTCATTAGATGT
TCTTAGTTGTACCGAGTCAGAGTGTTCCTAAGTTAGGGACTGGACTACTAATCAGATTTTGTGT
TTTCACATAGAAAGGTTATCGGAGTCAGTTTACTTTTCTGTGAGTGATAGTAAGAGCGTGAGTC
AGTTGAAACACATTGGGAGGGGTTGCCAAATATCAGCATAAAGACAGTGGCTCAGAAGAGGCAG
AAAGGGCCCTCTTAGTCCATAAAATGTGCCCTCCTTAAACTGATGTGGTCTGAGTCTATCTTGT
GTGTCTTGGGATTTTTGGTTGGTGGGTGGGTTGGTTGGTTGGTTAGTTGGTTGGTTTTAGTTTT
TTTGAAACACGGTCTCACTGTGTGACCCAGACTGGCCTCAGATGCACAGATGCATCGGCCTCCC
AAGTGCTGGGATTGGAGGTATGTCCCACCACACCCTGTAGCCTTTTTCTTTTTGGTCAAAGAAA
GAATCCTTGGGCTCAAGTGGTCTTTGCAACTTAGCCCCAGAAGTAGCTAAGACTACATGTGGGC
ACCAGCATGTGCTGATAGACCTTCTTTTAAAGCCTGATGTTAGTCTTACTTGGATATTTATTTT
CATATGTCAAGCAGAATAAAGGGTGGGACACATTTTTATTCTGGCTATTGTTTCATTTCACAAG
CTACTTAGAACAAGTTAGCAGGGATGAGAAGAAAAACATTGCTAGTCCAGTTGGCTTCAGCTTA
TAAAGCAAGGGCCATACCATGTTGTGTCCCTCAACTCCAAGTCCCTGTGTGTGTGGCTGTGTCC
CAAAGTGACACCGTGCTGGTGGTGTGTAAGTGAGGGCTGATTTCCAGTGTGCGCTGAGAGATGA
CATGATTGAGGTAGGTGAACCTAGAGATAAAAGGGTTCTTATAATTGAATATAGAAAACTTCTG
GTTTGACGGTGTTACATTAGGTTCTTTTCACTTGAAAAGATTTTGAAATAAAATCACATATTTT
AAAGCTGTAAATTGTATATGTCTGAGGATTTAGTAAAATGTCAGAGATCAATCTATAAGAAAAT
TTAAATATTGTTTTTATATCTTAGTTGTCTGTCATTATTTTAGATCCCACAATCCCTAATTTAA
CCATTTCGGCAAGTGCCTTTGACACTTAAGGAGTATTGTGGGAGATGAGCAAATGTAGGTGCCA
CACCCCGTTTCCTGGCTTCTCAATTCCTCGTGACAGTATATGTTTTACAGTGCTACAAAGTTCA
GTCCTTTGTGTTCATGTGAGATTGTACTGTAGCCTTTCCATAGTAAACAGCAAAATAAACCATT
TGCAGAAAATGAAAAGTAAGCACTGTGGCTTGTTCAGTATGTTACCCATTGACCCAGCTTCAAA
GCAAAGCACCTATGCAAGCAACCCAATTCCATTGCTCCCTGTTTCTAATAAAGTACATGAACCT
ATCTGGAAA

hide sequence

RefSeq Acc Id:

XM_039090952 ⟹ XP_038946880

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,550 - 77,475,909 (+)	NCBI
mRatBN7.2	13	74,920,423 - 74,942,673 (+)	NCBI

RefSeq Acc Id:

XM_039090953 ⟹ XP_038946881

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,135 - 77,466,711 (+)	NCBI
mRatBN7.2	13	74,919,878 - 74,933,408 (+)	NCBI

RefSeq Acc Id:

XM_063272518 ⟹ XP_063128588

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,550 - 77,475,909 (+)	NCBI

RefSeq Acc Id:

XR_005492263

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	77,453,135 - 77,475,909 (+)	NCBI
mRatBN7.2	13	74,919,872 - 74,942,673 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001102326	(Get FASTA)	NCBI Sequence Viewer
	XP_006250246	(Get FASTA)	NCBI Sequence Viewer
	XP_006250248	(Get FASTA)	NCBI Sequence Viewer
	XP_038946880	(Get FASTA)	NCBI Sequence Viewer
	XP_038946881	(Get FASTA)	NCBI Sequence Viewer
	XP_063128588	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM09401	(Get FASTA)	NCBI Sequence Viewer
	EDM09402	(Get FASTA)	NCBI Sequence Viewer
	EDM09403	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000068049.2
	ENSRNOP00000068349.1

RefSeq Acc Id:	NP_001102326 ⟸ NM_001108856
- UniProtKB:	A6ID94 (UniProtKB/TrEMBL), A0A096MJ99 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPPKFKRHLNDDDVTGSVKSERRNLLEDDSDEEEDFFLRGPSGPRFGPRNDKIKHVQNQVDEVI DVMQENITKVIERGERLDELQDKSESLSDNATAFSNRSKQLRRQMWWRGCKIKAIMALAAAILL LMIITQIILHLKK hide sequence

RefSeq Acc Id:	XP_006250246 ⟸ XM_006250184
- Peptide Label:	isoform X1
- UniProtKB:	A0A096MJ99 (UniProtKB/TrEMBL), A6ID95 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPPKFKRHLNDDDVTGSVKSERRNLLEDDSDEEEDFFLRGPSGPRFGPRNDKIKHVQNQVDEVI DVMQENITKVIERGERLDELQDKSESLSDNATAFSNRSKQLRRQMWWRGCKIKAIMALAAAILL LMIIILIVVKYRT hide sequence

RefSeq Acc Id:	XP_006250248 ⟸ XM_006250186
- Peptide Label:	isoform X2
- UniProtKB:	A6ID94 (UniProtKB/TrEMBL), A0A096MJ99 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPPKFKRHLNDDDVTGSVKSERRNLLEDDSDEEEDFFLRGPSGPRFGPRNDKIKHVQNQVDEVI DVMQENITKVIERGERLDELQDKSESLSDNATAFSNRSKQLRRQMWWRGCKIKAIMALAAAILL LMIITQIILHLKK hide sequence

RefSeq Acc Id:

ENSRNOP00000004243 ⟸ ENSRNOT00000004243

RefSeq Acc Id:

ENSRNOP00000068049 ⟸ ENSRNOT00000076922

RefSeq Acc Id:

ENSRNOP00000068349 ⟸ ENSRNOT00000076324

RefSeq Acc Id:	XP_038946881 ⟸ XM_039090953
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038946880 ⟸ XM_039090952
- Peptide Label:	isoform X1
- UniProtKB:	A6ID95 (UniProtKB/TrEMBL), A0A096MJ99 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063128588 ⟸ XM_063272518
- Peptide Label:	isoform X2
- UniProtKB:	A6ID94 (UniProtKB/TrEMBL)

Protein Domains

v-SNARE coiled-coil homology

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0A096MJ99-F1-model_v2	AlphaFold	A0A096MJ99	1-141	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698949

Promoter ID:

EPDNEW_R9465

Type:

multiple initiation site

Name:

Vamp4_1

Description:

vesicle-associated membrane protein 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	13	80,460,691 - 80,460,751	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309753	AgrOrtholog
BioCyc Gene	G2FUF-17645	BioCyc
Ensembl Genes	ENSRNOG00000003071	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000076324.2	UniProtKB/TrEMBL
	ENSRNOT00000076922.3	UniProtKB/TrEMBL
Gene3D-CATH	1.20.5.110	UniProtKB/TrEMBL
InterPro	Synaptobrevin	UniProtKB/TrEMBL
	V_SNARE_CC	UniProtKB/TrEMBL
	VAMP4	UniProtKB/TrEMBL
KEGG Report	rno:364033	UniProtKB/TrEMBL
NCBI Gene	364033	ENTREZGENE
PANTHER	PTHR46897	UniProtKB/TrEMBL
	VESICLE-ASSOCIATED MEMBRANE PROTEIN 4	UniProtKB/TrEMBL
Pfam	Synaptobrevin	UniProtKB/TrEMBL
PhenoGen	Vamp4	PhenoGen
PRINTS	SYNAPTOBREVN	UniProtKB/TrEMBL
PROSITE	SYNAPTOBREVIN	UniProtKB/TrEMBL
	V_SNARE	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000003071	RatGTEx
Superfamily-SCOP	SNARE fusion complex	UniProtKB/TrEMBL
UniProt	A0A096MJ99	ENTREZGENE, UniProtKB/TrEMBL
	A0A096MK21_RAT	UniProtKB/TrEMBL
	A6ID94	ENTREZGENE, UniProtKB/TrEMBL
	A6ID95	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Vamp4	vesicle-associated membrane protein 4	Vamp4_predicted	vesicle-associated membrane protein 4 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Vamp4_predicted	vesicle-associated membrane protein 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 - ClinVar