Vps4a (vacuolar protein sorting 4 homolog A)

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Gene: Vps4a (vacuolar protein sorting 4 homolog A) Rattus norvegicus

Analyze

Symbol:

Vps4a

Name:

vacuolar protein sorting 4 homolog A

RGD ID:

628810

Description:

Enables small GTPase binding activity. Predicted to be involved in several processes, including negative regulation of cell cycle process; proteolysis involved in protein catabolic process; and vesicle organization. Located in early endosome. Orthologous to human VPS4A (vacuolar protein sorting 4 homolog A); PARTICIPATES IN autophagy pathway; endocytosis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; ammonium chloride.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

vacuolar protein sorting 4 homolog A (S. cerevisiae); vacuolar protein sorting 4a; vacuolar protein sorting 4a (yeast); vacuolar protein sorting protein 4a; vacuolar protein sorting-associated protein 4A

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):	VPS4A (vacuolar protein sorting 4 homolog A)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Vps4a (vacuolar protein sorting 4A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Vps4a (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	VPS4A (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	VPS4A (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Vps4a (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	VPS4A (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	VPS4A (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Vps4a (vacuolar protein sorting 4 homolog A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	VPS4B (vacuolar protein sorting 4 homolog B)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	VPS4A (vacuolar protein sorting 4 homolog A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Vps4a (vacuolar protein sorting 4A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	vps4a (vacuolar protein sorting 4 homolog A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	VPS4	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Vps4	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	vps-4	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	vps4a	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

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	19	34,934,999 - 34,948,888 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	34,934,961 - 34,948,887 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	41,750,699 - 41,763,746 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	42,404,046 - 42,417,093 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	44,703,279 - 44,716,379 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	39,230,050 - 39,243,298 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	39,229,754 - 39,243,496 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	50,093,663 - 50,106,670 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	36,887,345 - 36,900,864 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	36,892,225 - 36,905,745 (+)	NCBI
Celera	19	34,358,772 - 34,371,812 (+)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal dominant dyskeratosis congenita 6 (ISO)

CIMDAG SYNDROME (ISO)

congenital dyserythropoietic anemia (ISO)

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

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

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

2,6-dinitrotoluene (EXP)

3,3',5,5'-tetrabromobisphenol A (ISO)

4,4'-sulfonyldiphenol (ISO)

acetylsalicylic acid (ISO)

ammonium chloride (EXP)

Aroclor 1254 (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium sulfate (ISO)

captan (ISO)

cocaine (EXP)

decabromodiphenyl ether (ISO)

dibutyl phthalate (EXP)

dicrotophos (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

ethanol (ISO)

fenthion (ISO)

flavonoids (EXP)

folic acid (ISO)

folpet (ISO)

fulvestrant (ISO)

irinotecan (ISO)

ivermectin (ISO)

methapyrilene (ISO)

paracetamol (ISO)

PCB138 (EXP)

pentachlorophenol (ISO)

selenium atom (ISO)

selenomethionine (ISO)

temozolomide (ISO)

urethane (ISO)

valproic acid (ISO)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

abscission (IEA,ISO,ISS)

cell division (ISO)

endosomal transport (IBA,IC,IEA,ISO)

endosomal vesicle fusion (IEA,ISO)

intracellular cholesterol transport (IEA,ISO)

late endosomal microautophagy (IEA,ISO)

midbody abscission (IEA,ISO)

mitotic cytokinesis checkpoint signaling (IEA,ISO,ISS)

mitotic metaphase chromosome alignment (IEA,ISO)

multivesicular body assembly (IEA,ISO)

negative regulation of cytokinesis (IEA,ISO,ISS)

nucleus organization (IEA,ISO)

positive regulation of exosomal secretion (IEA,ISO)

positive regulation of viral budding via host ESCRT complex (IEA,ISO)

protein targeting to lysosome (IEA,ISO)

regulation of protein localization (ISO)

regulation of protein localization to plasma membrane (IEA,ISO)

ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (IEA,ISO)

ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway (IEA,ISO)

vacuole organization (IBA)

vesicle budding from membrane (IEA,ISO)

vesicle uncoating (IEA,ISO)

vesicle-mediated transport (ISO)

viral budding from plasma membrane (IEA,ISO)

viral budding via host ESCRT complex (IEA,ISO)

Cellular Component

centrosome (IEA,ISO)

cytoplasm (ISO)

cytosol (IEA,ISO)

early endosome (IDA,IEA,ISO)

endosome (ISO)

endosome membrane (ISO)

Flemming body (IEA,ISO)

late endosome (ISO)

late endosome membrane (IEA)

lysosome (IEA,ISO)

midbody (ISO,ISS)

nucleus (IEA,ISO)

perinuclear region of cytoplasm (IEA,ISO)

plasma membrane (IEA,ISO)

spindle pole (IEA,ISO)

vacuolar membrane (IEA,ISO)

Molecular Function

ATP binding (IEA,ISO)

ATP hydrolysis activity (IEA,ISO)

protein binding (ISO)

protein-containing complex binding (IEA,ISO)

small GTPase binding (IPI)

Molecular Pathway Annotations Click to see Annotation Detail View

autophagy pathway (ISO)

endocytosis pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
4.	GOA pipeline	RGD automated data pipeline
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Information Derived from GenBank Report	RGD, Sept. 2003
7.	How do ESCRT proteins control autophagy?	Rusten TE and Stenmark H, J Cell Sci. 2009 Jul 1;122(Pt 13):2179-83.
8.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
9.	Vps4-A (vacuolar protein sorting 4-A) is a binding partner for a novel Rho family GTPase, Rnd2.	Tanaka H, etal., Biochem J. 2002 Jul 15;365(Pt 2):349-53.

Additional References at PubMed

PMID:10637304	PMID:11559748	PMID:11563910	PMID:11595185	PMID:12594041	PMID:15075231	PMID:16193069	PMID:16973552	PMID:17853893	PMID:17928862	PMID:17940959	PMID:18005716
PMID:18606141	PMID:19129479	PMID:19199708	PMID:20616062	PMID:21238931	PMID:22547407	PMID:22660413	PMID:23533145	PMID:24107264	PMID:24814515	PMID:24878737	PMID:28064406
PMID:29476059

Genomics

Comparative Map Data

Vps4a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	19	34,934,999 - 34,948,888 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	34,934,961 - 34,948,887 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	41,750,699 - 41,763,746 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	42,404,046 - 42,417,093 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	44,703,279 - 44,716,379 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	39,230,050 - 39,243,298 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	39,229,754 - 39,243,496 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	50,093,663 - 50,106,670 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	36,887,345 - 36,900,864 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	36,892,225 - 36,905,745 (+)	NCBI
Celera	19	34,358,772 - 34,371,812 (+)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

VPS4A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	69,311,350 - 69,326,939 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	69,311,350 - 69,326,939 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	69,345,253 - 69,360,842 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	67,902,788 - 67,916,447 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	67,902,787 - 67,916,446	NCBI
Celera	16	53,859,828 - 53,873,486 (+)	NCBI		Celera
Cytogenetic Map	16	q22.1	NCBI
HuRef	16	55,223,517 - 55,237,174 (+)	NCBI		HuRef
CHM1_1	16	70,753,291 - 70,766,948 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	16	75,113,104 - 75,128,634 (+)	NCBI		T2T-CHM13v2.0

Vps4a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	107,757,901 - 107,772,392 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	107,757,854 - 107,772,387 (+)	Ensembl		GRCm39 Ensembl
GRCm38	8	107,031,269 - 107,045,760 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	107,031,222 - 107,045,755 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	109,555,226 - 109,569,656 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	109,920,455 - 109,934,885 (+)	NCBI		MGSCv36	mm8
Celera	8	111,257,885 - 111,272,306 (+)	NCBI		Celera
Cytogenetic Map	8	D3	NCBI
cM Map	8	53.53	NCBI

Vps4a
(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_004955484	7,368,938 - 7,375,969 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955484	7,368,938 - 7,375,964 (-)	NCBI	ChiLan1.0	ChiLan1.0

VPS4A
(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	16	84,767,388 - 84,781,302 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	49,685,827 - 49,699,542 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	68,946,466 - 69,085,714 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	69,074,091 - 69,085,714 (+)	Ensembl	panpan1.1		panPan2

VPS4A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	80,327,059 - 80,340,380 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	80,311,739 - 80,330,670 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	80,755,360 - 80,774,301 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	80,759,718 - 80,774,322 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	80,582,504 - 80,601,442 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	80,265,344 - 80,284,280 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	80,904,921 - 80,923,853 (-)	NCBI		UU_Cfam_GSD_1.0

Vps4a
(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_024409349	40,144,891 - 40,156,804 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936475	19,432,229 - 19,444,223 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936475	19,432,311 - 19,444,223 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VPS4A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	17,654,638 - 17,669,841 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	17,657,792 - 17,669,560 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	16,604,522 - 16,616,293 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VPS4A
(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	5	58,081,800 - 58,095,115 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	5	58,082,521 - 58,095,173 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666047	20,811,652 - 20,825,117 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vps4a
(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_004624746	17,047,519 - 17,054,738 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624746	17,044,173 - 17,059,295 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Vps4a
85 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	114
Count of miRNA genes:	91
Interacting mature miRNAs:	99
Transcripts:	ENSRNOT00000027607, ENSRNOT00000050612
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
9590298	Uminl5	Urine mineral level QTL 5	3.59	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	19	1	36824771	Rat
8552935	Pigfal10	Plasma insulin-like growth factor 1 level QTL 10	5.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	19	1	36824771	Rat
9590250	Scort11	Serum corticosterone level QTL 11	23.45	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	19	1	36824771	Rat
9590090	Insglur8	Insulin/glucose ratio QTL 8	10.81	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	19	1	36824771	Rat
9589102	Slep13	Serum leptin concentration QTL 13	4.63	0.001	blood leptin amount (VT:0005667)	plasma leptin level (CMO:0000781)	19	569374	45569374	Rat
8694186	Bw152	Body weight QTL 152	3.34	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	19	569374	45569374	Rat
7247442	Uae39	Urinary albumin excretion QTL 39			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	19	2187927	46708701	Rat
724566	Uae12	Urinary albumin excretion QTL 12	5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	19	2187927	56457239	Rat
61447	Tcas1	Tongue tumor susceptibility QTL 1	6.08		tongue integrity trait (VT:0010553)	squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)	19	2316121	47316121	Rat
2317848	Alcrsp21	Alcohol response QTL 21	1.899999976158142	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	19	3204777	48204777	Rat
1331737	Uae29	Urinary albumin excretion QTL 29	5.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	19	4096155	55283277	Rat
724518	Uae19	Urinary albumin excretion QTL 19	5.5		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	19	7457249	42983518	Rat
724565	Tcas5	Tongue tumor susceptibility QTL 5	10.04		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	19	9977753	39654489	Rat
61423	Cia14	Collagen induced arthritis QTL 14	3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	19	10827970	43544039	Rat
7411549	Bw130	Body weight QTL 130	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	19	15455860	57337602	Rat
1331788	Rf45	Renal function QTL 45	2.818		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	19	15605023	46559041	Rat
1578764	Stresp19	Stress response QTL 19	3.6	0.001	blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	19	15630201	57337602	Rat
2298478	Eau8	Experimental allergic uveoretinitis QTL 8		0.0163	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	19	17154433	57337602	Rat
61350	Bp32	Blood pressure QTL 32		0.012	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	19	20483575	57337602	Rat
1549835	Tcas7	Tongue tumor susceptibility QTL 7		0.001	tongue integrity trait (VT:0010553)	squamous cell carcinoma of the head and neck tumor number (CMO:0001876)	19	24817978	39654489	Rat
1354600	Salc2	Saline consumption QTL 2	9.91	0.001	drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	19	27530207	37947399	Rat
1354607	Gmadr1	Adrenal mass QTL 1	5.83		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	19	27530207	37947399	Rat
1354633	Bw28	Body weight QTL 28	6.04		body mass (VT:0001259)	body weight (CMO:0000012)	19	27530207	37947399	Rat
724546	Kidm3	Kidney mass QTL 3	3.1		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	19	29322490	57337602	Rat
1358200	Insglur2	Insulin/glucose ratio QTL 2	4.1		blood glucose amount (VT:0000188)	serum insulin level (CMO:0000358)	19	33838214	55283146	Rat
1358200	Insglur2	Insulin/glucose ratio QTL 2	4.1		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	19	33838214	55283146	Rat

Markers in Region

AW553189

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	34,948,535 - 34,948,650 (+)	MAPPER	mRatBN7.2
Rnor_6.0	19	39,243,567 - 39,243,681	NCBI	Rnor6.0
Rnor_5.0	19	50,106,939 - 50,107,053	UniSTS	Rnor5.0
RGSC_v3.4	19	36,901,133 - 36,901,247	UniSTS	RGSC3.4
Celera	19	34,372,081 - 34,372,195	UniSTS
Cytogenetic Map	19	q12	UniSTS

AI325971

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	34,948,630 - 34,948,806 (+)	MAPPER	mRatBN7.2
Rnor_6.0	19	39,243,662 - 39,243,837	NCBI	Rnor6.0
Rnor_5.0	19	50,107,034 - 50,107,209	UniSTS	Rnor5.0
RGSC_v3.4	19	36,901,228 - 36,901,403	UniSTS	RGSC3.4
Celera	19	34,372,176 - 34,372,351	UniSTS
Cytogenetic Map	19	q12	UniSTS

RH129713

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	34,948,652 - 34,948,834 (+)	MAPPER	mRatBN7.2
Rnor_6.0	19	39,243,684 - 39,243,865	NCBI	Rnor6.0
Rnor_5.0	19	50,107,056 - 50,107,237	UniSTS	Rnor5.0
RGSC_v3.4	19	36,901,250 - 36,901,431	UniSTS	RGSC3.4
Celera	19	34,372,198 - 34,372,379	UniSTS
RH 3.4 Map	19	315.1	UniSTS
Cytogenetic Map	19	q12	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	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_145678	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006255560	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB076398	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC116255	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC070931	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473972	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213218	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219248	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000313	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000050612 ⟹ ENSRNOP00000046690

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	19	34,934,961 - 34,948,887 (+)	Ensembl
Rnor_6.0 Ensembl	19	39,229,754 - 39,243,496 (+)	Ensembl

RefSeq Acc Id:

NM_145678 ⟹ NP_663711

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	19	34,935,040 - 34,948,888 (+)	NCBI
Rnor_6.0	19	39,230,243 - 39,243,298 (+)	NCBI
Rnor_5.0	19	50,093,663 - 50,106,670 (+)	NCBI
RGSC_v3.4	19	36,887,345 - 36,900,864 (+)	RGD
Celera	19	34,358,772 - 34,371,812 (+)	RGD

Sequence:

show sequence

ATGACAACGTCAACCCTCCAGAAAGCCATCGATCTGGTGACAAAAGCCACAGAAGAGGACAAAG
CCAAGAACTACGAGGAGGCACTTCGGCTCTACCAGCATGCTGTGGAGTATTTCCTCCACGCCAT
CAAATATGAAGCCCACAGTGACAAGGCCAAGGAGAGCATTCGAGCAAAGTGCATGCAGTACCTA
GACAGAGCGGAGAAGCTGAAGGATTATTTAAGAAACAAAGAGAAACATGGCAAAAAGCCAGTCA
AAGAGAATCAGAGTGAAGGCAAGGGTAGTGACAGTGACAGCGAAGGGGATAATCCAGAGAAAAA
GAAATTACAAGAACAGTTGATGGGTGCTGTTGTGATGGAGAAGCCCAACATTCGGTGGAATGAT
GTAGCTGGACTGGAGGGAGCTAAAGAAGCTCTCAAAGAAGCTGTGATTTTGCCGATAAAATTTC
CACACTTATTCACAGGCAAACGTACTCCTTGGCGAGGCATACTGCTCTTTGGGCCCCCAGGCAC
AGGCAAGTCCTACCTGGCCAAAGCCGTGGCAACAGAAGCCAACAACTCTACCTTCTTCTCTGTG
TCCTCCTCGGATCTGATGTCTAAGTGGTTGGGGGAAAGCGAGAAGCTAGTCAAAAACCTGTTTG
AGTTGGCCAGACAGCACAAGCCTTCCATCATCTTCATTGATGAGGTGGATTCCCTCTGCGGGTC
ACGGAATGAAAATGAGAGCGAGGCAGCCCGAAGGATCAAAACAGAGTTCTTGGTCCAAATGCAG
GGAGTGGGGAATAATAATGATGGGACTCTTGTTCTTGGTGCCACAAACATCCCCTGGGTGTTGG
ATTCAGCCATCAGGAGGAGGTTTGAAAAGCGAATTTATATCCCATTGCCAGAGGAAGCGGCCCG
TGCCCAGATGTTTCGGTTACACCTGGGAAGCACACCTCACAACCTCACAGATGCTAACATCCAT
GAGCTGGCCCGCAAGACAGAAGGCTACTCAGGAGCAGATATCAGCATTATCGTGCGGGACTCTC
TCATGCAGCCAGTCAGAAAAGTACAGTCAGCAACACACTTCAAGAAGGTTTGTGGTCCTTCTCG
AACCAACCCTAGTGTTATGATTGATGATCTTCTGACCCCATGTTCTCCAGGAGATCCAGGGGCT
ATAGAGATGACTTGGATGGATGTCCCTGGTGATAAACTCTTAGAGCCTGTGGTTTGCATGTCGG
ACATGCTCCGGTCTCTGGCCACTACCCGGCCCACAGTGAATGCAGATGACCTCCTGAAAGTAAA
GAAATTCTCTGAGGACTTTGGACAGGAGAGTTAA

hide sequence

RefSeq Acc Id:

XM_006255560 ⟹ XP_006255622

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	19	34,934,999 - 34,947,824 (+)	NCBI
Rnor_6.0	19	39,230,050 - 39,242,855 (+)	NCBI
Rnor_5.0	19	50,093,663 - 50,106,670 (+)	NCBI

Sequence:

show sequence

CTCGGGCTGGGCCGCTCTGGGCCGCGCTCCTCGTTCACCGTCGGACTCGGCTCCGACTGCTAGT
GGCAGCCCTGCCCGCGCCGAGAGTCGACCTGCCAGGCTCCTGAGCAGCGGACCTACCACCTCGG
CTCCTCCGGGCCGGACCGAGGCCGCAAGCAGCACCGCGGGGTGTGGGGCGGACCCAGGATATGA
AATGACAACGTCAACCCTCCAGAAAGCCATCGATCTGGTGACAAAAGCCACAGAAGAGGACAAA
GCCAAGAACTACGAGGAGGCACTTCGGCTCTACCAGCATGCTGTGGAGTATTTCCTCCACGCCA
TCAAATATGAAGCCCACAGTGACAAAGCCAAGGAGAGCATTCGAGCAAAGTGCATGCAGTACCT
AGACAGAGCGGAGAAGCTGAAGGATTATTTAAGAAACAAAGAGAAACATGGCAAAAAGCCAGTC
AAAGAGAATCAGAGTGAAGGCAAGGGTAGTGACAGTGACAGCGAAGGGGATAATCCAGAGAAAA
AGAAATTACAAGAACAGTTGATGGGTGCTGTTGTGATGGAGAAGCCCAACATTCGGTGGAATGA
TGTAGCTGGACTGGAGGGAGCTAAAGAAGCTCTCAAAGAAGCTGTGATTTTGCCGATAAAATTT
CCACACTTATTCACAGGCAAACGTACTCCTTGGCGAGGCATACTGCTCTTTGGGCCCCCAGGCA
CAGGCAAGTCCTACCTGGCCAAAGCCGTGGCAACAGAAGCCAACAACTCTACCTTCTTCTCTGT
GTCCTCCTCGGATCTGATGTCTAAGTGGTTGGGGGAAAGCGAGAAGCTAGTCAAAAACCTGTTT
GAGTTGGCCAGACAGCACAAGCCTTCCATCATCTTCATTGATGAGGTGGATTCCCTCTGCGGGT
CACGGAATGAAAATGAGAGCGAGGCAGCCCGAAGGATCAAAACAGAGTTCTTGGTCCAAATGCA
GGGAGTGGGGAATAATAATGATGGGACTCTTGTTCTTGGTGCCACAAACATCCCCTGGGTGTTG
GATTCAGCCATCAGGAGGAGGTTTGAAAAGCGAATTTATATCCCATTGCCAGAGGAAGCGGCCC
GTGCCCAGATGTTTCGGTTACACCTGGGAAGCACACCTCACAACCTCACAGATGCTAACATCCA
TGAGCTGGCCCGCAAGACAGAAGGCTACTCAGGAGCAGATATCAGCATTATCGTGCGGGACTCT
CTCATGCAGCCAGTCAGAAAAGTACAGTCAGCAACACACTTCAAGAAGGTTTGTGGTCCTTCTC
GAACCAACCCTAGTGTTATGATTGATGATCTTCTGACCCCATGTTCTCCAGGAGATCCAGGGGC
TATAGAGATGACTTGGATGGATGTCCCTGGTGATAAACTCTTAGAGCCTGTGGTTTGCATGGTA
AGTGACCCACTGGGAGAGACCAGAAAGTCCAGAGTAAAGACAAGTGTCTTCCTGTTGTCCTGGC
TCACAGCCCTCCCAGAGAGTAGCCTTTGTGGTTGTAGGCAGCTGAAGTTCTTGCTGAGATCCTG
AGGGTCTTTAAAAGGAAGAGTAGGGGGTTGGGGATTTGGCTCAGTGGTAGAGTGCTTGCCTAGC
AAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_663711	(Get FASTA)	NCBI Sequence Viewer
	XP_006255622	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH70931	(Get FASTA)	NCBI Sequence Viewer
	BAC00961	(Get FASTA)	NCBI Sequence Viewer
	EDL92462	(Get FASTA)	NCBI Sequence Viewer
	Q793F9	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_663711 ⟸ NM_145678

- UniProtKB:

Q793F9 (UniProtKB/Swiss-Prot), A6IYY4 (UniProtKB/TrEMBL), F7F1Y3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTTSTLQKAIDLVTKATEEDKAKNYEEALRLYQHAVEYFLHAIKYEAHSDKAKESIRAKCMQYL
DRAEKLKDYLRNKEKHGKKPVKENQSEGKGSDSDSEGDNPEKKKLQEQLMGAVVMEKPNIRWND
VAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSV
SSSDLMSKWLGESEKLVKNLFELARQHKPSIIFIDEVDSLCGSRNENESEAARRIKTEFLVQMQ
GVGNNNDGTLVLGATNIPWVLDSAIRRRFEKRIYIPLPEEAARAQMFRLHLGSTPHNLTDANIH
ELARKTEGYSGADISIIVRDSLMQPVRKVQSATHFKKVCGPSRTNPSVMIDDLLTPCSPGDPGA
IEMTWMDVPGDKLLEPVVCMSDMLRSLATTRPTVNADDLLKVKKFSEDFGQES

hide sequence

RefSeq Acc Id:	XP_006255622 ⟸ XM_006255560
- Peptide Label:	isoform X1
- UniProtKB:	Q6IRG3 (UniProtKB/TrEMBL), F7F1Y3 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTTSTLQKAIDLVTKATEEDKAKNYEEALRLYQHAVEYFLHAIKYEAHSDKAKESIRAKCMQYL DRAEKLKDYLRNKEKHGKKPVKENQSEGKGSDSDSEGDNPEKKKLQEQLMGAVVMEKPNIRWND VAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSV SSSDLMSKWLGESEKLVKNLFELARQHKPSIIFIDEVDSLCGSRNENESEAARRIKTEFLVQMQ GVGNNNDGTLVLGATNIPWVLDSAIRRRFEKRIYIPLPEEAARAQMFRLHLGSTPHNLTDANIH ELARKTEGYSGADISIIVRDSLMQPVRKVQSATHFKKVCGPSRTNPSVMIDDLLTPCSPGDPGA IEMTWMDVPGDKLLEPVVCMVSDPLGETRKSRVKTSVFLLSWLTALPESSLCGCRQLKFLLRS hide sequence

RefSeq Acc Id:

ENSRNOP00000046690 ⟸ ENSRNOT00000050612

Protein Domains

AAA+ ATPase MIT

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q793F9-F1-model_v2	AlphaFold	Q793F9	1-437	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628810	AgrOrtholog
BioCyc Gene	G2FUF-5768	BioCyc
Ensembl Genes	ENSRNOG00000020351	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000046690	ENTREZGENE
	ENSRNOP00000046690.4	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000050612	ENTREZGENE
	ENSRNOT00000050612.6	UniProtKB/TrEMBL
Gene3D-CATH	1.10.8.60	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.40.50.300	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Phosphotransferase system, lactose/cellobiose-type IIA subunit	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7096867	IMAGE-MGC_LOAD
InterPro	AAA+_ATPase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	AAA_lid_3	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ATPase_AAA_core	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ATPase_AAA_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	MIT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	MIT_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Vps4_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	VPS4_MIT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:246772	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:91460	IMAGE-MGC_LOAD
NCBI Gene	246772	ENTREZGENE
PANTHER	AAA DOMAIN-CONTAINING	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 4A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	AAA	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	AAA_lid_3	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	MIT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Vps4_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Vps4a	PhenoGen
PROSITE	AAA	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	AAA	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	MIT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF116846	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF52540	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A6IYY4	ENTREZGENE, UniProtKB/TrEMBL
	F7F1Y3	ENTREZGENE, UniProtKB/TrEMBL
	Q6IRG3	ENTREZGENE, UniProtKB/TrEMBL
	Q793F9	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-04-13	Vps4a	vacuolar protein sorting 4 homolog A	Vps4a	vacuolar protein sorting 4 homolog A (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-25	Vps4a	vacuolar protein sorting 4 homolog A (S. cerevisiae)	Vps4a	vacuolar protein sorting 4a (yeast)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Vps4a	vacuolar protein sorting 4a (yeast)		vacuolar protein sorting protein 4a	Name updated	1299863	APPROVED
2003-02-27	Vps4a	vacuolar protein sorting protein 4a			Symbol and Name status set to provisional	70820	PROVISIONAL

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

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

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

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

Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)