Vps4b (vacuolar protein sorting 4 homolog B)

Gene: Vps4b (vacuolar protein sorting 4 homolog B) Rattus norvegicus

Analyze

Symbol:

Vps4b

Name:

vacuolar protein sorting 4 homolog B

RGD ID:

1305969

Description:

Predicted to enable ATP hydrolysis activity and protein homodimerization activity. Predicted to be involved in several processes, including proteolysis involved in protein catabolic process; regulation of cell cycle process; and regulation of exosomal secretion. Predicted to act upstream of or within several processes, including endosome organization; establishment of blood-brain barrier; and potassium ion transport. Predicted to be located in several cellular components, including Flemming body; endosome membrane; and microtubule cytoskeleton. Orthologous to human VPS4B (vacuolar protein sorting 4 homolog B); PARTICIPATES IN endocytosis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 3-chloropropane-1,2-diol.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC360834; MGC116271; vacuolar protein sorting 4 homolog B (S. cerevisiae); vacuolar protein sorting 4b; vacuolar protein sorting 4b (yeast); vacuolar protein sorting-associated protein 4B

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):	VPS4B (vacuolar protein sorting 4 homolog B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Vps4b (vacuolar protein sorting 4B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Vps4b (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	VPS4B (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	VPS4B (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Vps4b (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	VPS4B (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	VPS4B (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Vps4b (vacuolar protein sorting 4 homolog B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	VPS4A (vacuolar protein sorting 4 homolog A)	HGNC	OrthoDB
Homo sapiens (human):	KATNAL1 (katanin catalytic subunit A1 like 1)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	VPS4B (vacuolar protein sorting 4 homolog B)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Vps4b (vacuolar protein sorting 4B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	vps4b (vacuolar protein sorting 4 homolog B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	VPS4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Vps4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	vps-4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	vps4b	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|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
GRCr8	13	23,421,758 - 23,446,848 (-)	NCBI		GRCr8
mRatBN7.2	13	22,907,105 - 22,932,200 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	22,907,109 - 22,932,229 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	23,229,947 - 23,255,030 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	24,514,416 - 24,539,500 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	23,200,133 - 23,225,220 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	26,825,261 - 26,850,460 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	26,825,261 - 26,850,460 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	31,975,737 - 32,000,936 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	12,959,843 - 12,984,933 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	12,959,842 - 12,984,933 (-)	NCBI
Celera	13	22,765,509 - 22,790,596 (-)	NCBI		Celera
Cytogenetic Map	13	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chromosome 18q deletion syndrome (ISO)

genetic disease (ISO)

multiple congenital anomalies-hypotonia-seizures syndrome 1 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

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)

3-chloropropane-1,2-diol (EXP)

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

4,4'-diaminodiphenylmethane (ISO)

acrylamide (ISO)

Aroclor 1254 (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

CGP 52608 (ISO)

cobalt dichloride (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

cyclosporin A (ISO)

decabromodiphenyl ether (ISO)

dexamethasone (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

flutamide (EXP)

folic acid (ISO)

formaldehyde (ISO)

FR900359 (ISO)

genistein (ISO)

gentamycin (EXP)

indometacin (ISO)

ivermectin (ISO)

lamivudine (ISO)

leflunomide (ISO)

methyl methanesulfonate (ISO)

N-methyl-4-phenylpyridinium (ISO)

paracetamol (EXP,ISO)

serpentine asbestos (ISO)

sodium fluoride (ISO)

Soman (EXP)

tetrachloromethane (ISO)

triptonide (ISO)

urethane (ISO)

zidovudine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

angiogenesis (ISO)

biological_process (ND)

canonical Wnt signaling pathway (ISO)

central nervous system development (ISO)

cholesterol transport (ISO)

endosomal transport (IBA,ISO)

endosome organization (ISO)

endosome to lysosome transport via multivesicular body sorting pathway (ISO)

ESCRT III complex disassembly (ISO)

establishment of blood-brain barrier (ISO)

late endosomal microautophagy (ISO)

midbody abscission (ISO)

mitotic metaphase chromosome alignment (ISO)

multivesicular body assembly (ISO)

negative regulation of exosomal secretion (ISO)

nucleus organization (ISO)

positive regulation of centriole elongation (ISO)

positive regulation of exosomal secretion (ISO)

positive regulation of G2/M transition of mitotic cell cycle (ISO)

potassium ion transport (ISO)

protein depolymerization (ISO)

regulation of centrosome duplication (ISO)

regulation of mitotic spindle assembly (ISO)

response to lipid (ISO)

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

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

vacuolar transport (ISO)

vacuole organization (IBA)

viral budding from plasma membrane (ISO)

viral budding via host ESCRT complex (ISO)

Cellular Component

centrosome (ISO)

cytoplasm (ISO)

cytosol (ISO)

endosome (ISO)

endosome membrane (ISO)

Flemming body (ISO)

late endosome membrane (IEA)

nucleus (ISO)

spindle pole (ISO)

Molecular Function

ATP binding (IEA)

ATP hydrolysis activity (ISO)

identical protein binding (ISO)

protein binding (ISO)

protein homodimerization activity (ISO)

protein-containing complex binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

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 GOA human gene data--August 2006	GOA 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.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:8082782	PMID:10637304	PMID:11563910	PMID:12477932	PMID:14505570	PMID:15024011	PMID:15173323	PMID:16193069	PMID:16757520	PMID:17928862	PMID:17940959	PMID:18687924
PMID:19056867	PMID:20616062	PMID:21238931	PMID:22547407	PMID:22660413	PMID:23376485	PMID:23533145	PMID:24077878	PMID:24105262	PMID:24107264

Genomics

Comparative Map Data

Vps4b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	13	23,421,758 - 23,446,848 (-)	NCBI		GRCr8
mRatBN7.2	13	22,907,105 - 22,932,200 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	22,907,109 - 22,932,229 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	23,229,947 - 23,255,030 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	24,514,416 - 24,539,500 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	23,200,133 - 23,225,220 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	26,825,261 - 26,850,460 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	26,825,261 - 26,850,460 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	31,975,737 - 32,000,936 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	12,959,843 - 12,984,933 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	12,959,842 - 12,984,933 (-)	NCBI
Celera	13	22,765,509 - 22,790,596 (-)	NCBI		Celera
Cytogenetic Map	13	p11	NCBI

VPS4B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	18	63,389,190 - 63,422,476 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	18	63,389,190 - 63,422,483 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	18	61,056,423 - 61,089,709 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	18	59,207,403 - 59,240,732 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	18	59,207,406 - 59,240,673	NCBI
Celera	18	57,776,059 - 57,809,388 (-)	NCBI		Celera
Cytogenetic Map	18	q21.33	NCBI
HuRef	18	57,754,990 - 57,788,280 (-)	NCBI		HuRef
CHM1_1	18	61,052,390 - 61,085,722 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	18	63,594,233 - 63,627,515 (-)	NCBI		T2T-CHM13v2.0

Vps4b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	106,698,518 - 106,724,455 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	106,691,801 - 106,724,458 (-)	Ensembl		GRCm39 Ensembl
GRCm38	1	106,770,788 - 106,796,725 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	106,764,071 - 106,796,728 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	108,667,365 - 108,693,302 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	108,598,705 - 108,624,223 (-)	NCBI		MGSCv36	mm8
Celera	1	109,620,154 - 109,646,158 (-)	NCBI		Celera
Cytogenetic Map	1	E2.1	NCBI
cM Map	1	50.1	NCBI

Vps4b
(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_004955402	47,154,007 - 47,184,021 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955402	47,154,350 - 47,183,979 (-)	NCBI	ChiLan1.0	ChiLan1.0

VPS4B
(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	17	80,900,440 - 80,933,640 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	18	66,593,051 - 66,626,392 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	18	56,749,439 - 56,782,660 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	18	60,062,080 - 60,095,109 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	18	60,060,285 - 60,095,109 (-)	Ensembl	panpan1.1		panPan2

VPS4B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	13,638,965 - 13,673,295 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	13,639,004 - 13,669,072 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	14,605,156 - 14,639,495 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	13,500,614 - 13,534,990 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	13,500,669 - 13,534,959 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	13,538,762 - 13,573,109 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	13,468,029 - 13,502,377 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	13,716,838 - 13,751,163 (+)	NCBI		UU_Cfam_GSD_1.0

Vps4b
(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_024404944	26,887,096 - 26,922,486 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936497	2,126,061 - 2,161,485 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936497	2,126,064 - 2,161,451 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VPS4B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	158,233,070 - 158,270,679 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	158,233,039 - 158,273,533 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	175,754,073 - 175,760,220 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VPS4B
(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	18	16,336,959 - 16,370,208 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	18	16,336,921 - 16,370,291 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666060	9,317,729 - 9,350,925 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vps4b
(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_004624792	9,098,291 - 9,128,931 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Vps4b
148 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	406
Count of miRNA genes:	251
Interacting mature miRNAs:	286
Transcripts:	ENSRNOT00000003715
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2317027	Aia22	Adjuvant induced arthritis QTL 22	2.29		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	13	1	34266636	Rat
738036	Lnnr4	Liver neoplastic nodule remodeling QTL 4	3.64		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	1	42356786	Rat
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
631672	Iddm12	Insulin dependent diabetes mellitus QTL 12	2.2	0.0032	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	13	5994668	34535351	Rat
61339	Bp24	Blood pressure QTL 24		0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	5994668	44807491	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
7411662	Foco29	Food consumption QTL 29	20.8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	13	9313465	54313465	Rat
9589141	Insul28	Insulin level QTL 28	10.82	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	13	9313465	54313465	Rat
2317040	Aia21	Adjuvant induced arthritis QTL 21	2.75		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	13	9831541	54831541	Rat
2317046	Aia8	Adjuvant induced arthritis QTL 8	3.9700000286102295		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	13	9831541	54831541	Rat
2303031	Bp326	Blood pressure QTL 326			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	11766535	23001904	Rat
2317034	Aia9	Adjuvant induced arthritis QTL 9	4.62		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	13	11766535	32331607	Rat
2317044	Aia23	Adjuvant induced arthritis QTL 23	2.3		joint integrity trait (VT:0010548)	ankle joint diameter (CMO:0002148)	13	11766535	32331607	Rat
1300163	Cardf1	Cardiac cell morphology QTL 1	4.18		aorta morphology trait (VT:0000272)	artery lesion measurement (CMO:0000975)	13	11929449	45417941	Rat
2302275	Gluco37	Glucose level QTL 37	3.8		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	13	11929449	46193066	Rat
631645	Bp121	Blood pressure QTL 121	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	14915655	59915655	Rat
9589164	Gluco66	Glucose level QTL 66	6.67	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	13	15158722	60158722	Rat
1331784	Bp222	Blood pressure QTL 222	2.944		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	17694436	53050594	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
61391	Bp5	Blood pressure QTL 5	5.6		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	22301875	67301875	Rat

Markers in Region

RH140013

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	22,907,130 - 22,907,348 (+)	MAPPER	mRatBN7.2
mRatBN7.2	20	10,280,315 - 10,280,533 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	11,001,431 - 11,001,648	NCBI	Rnor6.0
Rnor_6.0	13	26,825,287 - 26,825,504	NCBI	Rnor6.0
Rnor_5.0	20	13,172,334 - 13,172,551	UniSTS	Rnor5.0
Rnor_5.0	13	31,975,763 - 31,975,980	UniSTS	Rnor5.0
RGSC_v3.4	20	10,615,304 - 10,615,521	UniSTS	RGSC3.4
RGSC_v3.4	13	12,959,869 - 12,960,086	UniSTS	RGSC3.4
Celera	13	22,765,535 - 22,765,752	UniSTS
Celera	20	11,789,654 - 11,789,871	UniSTS
Cytogenetic Map	13	p13	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	10	74	35	38	11	8
Low								1			3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001025716	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC099128	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474000	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227412	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000003715 ⟹ ENSRNOP00000003715

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	22,907,109 - 22,932,229 (-)	Ensembl
Rnor_6.0 Ensembl	13	26,825,261 - 26,850,460 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000105495 ⟹ ENSRNOP00000089387

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	22,907,224 - 22,931,985 (-)	Ensembl

RefSeq Acc Id:

NM_001025716 ⟹ NP_001020887

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	23,421,758 - 23,446,848 (-)	NCBI
mRatBN7.2	13	22,907,105 - 22,932,200 (-)	NCBI
Rnor_6.0	13	26,825,261 - 26,850,460 (-)	NCBI
Rnor_5.0	13	31,975,737 - 32,000,936 (-)	NCBI
RGSC_v3.4	13	12,959,843 - 12,984,933 (-)	RGD
Celera	13	22,765,509 - 22,790,596 (-)	RGD

Sequence:

show sequence

CGGAAGTTTTGTGAGGAGGGTCTGGTGGCTGCTGGAGTTCCTGGTAGATTTACTGCTCTAGAGC
TGGGACTGCCGCTGGGGGTCTCAGAGCCGCCAGCCTCCGGAGCGTTGCGGCTGTGACCCGGGCG
CGACTCGACGGCGCTGCTGCGGGCCGGCCTCGTCTGTAGGGGACCCTTTGGATCTCCACCATGG
CGTCCACGAACACCAACCTCCAGAAAGCAATAGATCTTGCAAGCAAAGCAGCCCAGGAAGACAA
AGCTGGGAACTATGAGGAAGCTCTCCAACTCTACCAGCATGCTGTTCAGTATTTTCTCCATGTT
GTTAAATATGAAGCACAAGGTGATAAAGCCAAGCAAAGCATCAGGGCCAAGTGTACAGAATATC
TTGATAGAGCAGAAAAACTAAAGGAATATCTGAAGAAAAAAGAGAAGAAGCCACAGAAGCCCAT
GAAAGAGGAACAGTCAGGTCCAGTCGATGAGAAGGGGAATGACAGTGATGGGGAAGCAGAATCT
GATGATCCTGAAAAAAAGAAACTGCAGAATCAACTTCAAGGTGCCATTGTTATAGAGCGACCGA
ATGTGAAGTGGAGTGATGTTGCTGGTCTGGAAGGAGCCAAAGAAGCTCTTAAAGAGGCTGTCAT
TCTGCCTATTAAGTTTCCTCATCTGTTTACAGGGAAGAGGACACCTTGGAGAGGAATCCTATTA
TTTGGGCCACCAGGAACAGGAAAATCCTATTTAGCCAAAGCTGTTGCGACAGAAGCAAACAACT
CAACGTTTTTCTCAATATCTTCCTCCGACCTGGTGTCTAAGTGGCTGGGGGAGAGTGAAAAACT
GGTTAAGAACTTATTCCAGCTCGCCAGAGAGAACAAGCCTTCCATCATCTTCATCGATGAGATT
GACTCTCTGTGCGGTTCCAGAAGTGAGAATGAGAGCGAGGCTGCACGGAGAATTAAGACTGAGT
TCCTGGTTCAGATGCAAGGAGTTGGTGTGGACAATGATGGCATTTTGGTTCTGGGAGCTACAAA
TATCCCCTGGGTGCTGGACTCTGCAATTAGGCGAAGATTTGAGAAACGTATTTATATTCCTTTG
CCTGAAGCCCACGCTCGGGCAGCCATGTTTAGACTGCACTTGGGCAGCACTCAGAACAGCCTCA
CAGAAGCAGACTTCCAAGAGCTTGGGAGGAAGACAGATGGCTATTCAGGAGCAGATATAAGCAT
CATCGTACGGGATGCACTTATGCAGCCTGTGAGAAAAGTTCAGTCGGCTACTCACTTCAAAAAG
GTTCGTGGGCCCTCAAGGGCTGATCCTAACTGCATTGTAAATGACCTGCTGACACCCTGCTCTC
CGGGAGATCCAGGGGCTATTGAAATGACGTGGATGGATGTCCCTGGAGATAAACTCTTGGAGCC
AGTTGTTTCCATGTGGGATATGCTGCGGTCCCTATCCAGCACAAAGCCCACAGTCAATGAGCAG
GACTTGTTGAAACTGAAGAAGTTTACAGAAGATTTTGGCCAGGAAGGCTAACACAGAGACAGCA
AGAACATGTTTATGCTGCATTTCCTCTCTTTTGTAGGTATTTTGCCTTTCTCGGATGGCATTCA
GATTATTTCCAGCAAAACTCATTTACCCAGGGAAACATACACGTCATTTGGTGTCCCTTAAGTC
TCTGTTGTCCTTTTCCTATACTACCTGTTAAGTTCTCCAATTCACAAACATTGTTAAATTGTAA
GGAGGGGAGCCGGGGCATGTGGAACAGCAGAGTGGGGACAGCGAGGAGCCTCACCCTGCTTCAT
GGACAGCAGCTAGGATTCTCATGAGCACTCACTCAAAGAGCAAGGCCTTTCTTTTTCCTTTTTT
AAAAATGAAATTGAGACAGGGCTAAAGCTAATGATATATAAATGTCTTGAAAAAATCTTTAAGC
ATTTTACCAATGTAAAGTTACTGCTTTATTAAAAATTAAGAATGGTAGAATCTTTACTCTCAGG
GATGGGCAGCAAAACGTAGAGCACTGTGAAGAATTTGGGTCTGTGGCACAGGCAGTGCTCGTGT
TGAGTTTGCAGTGGGTTGATTTCTCCTGCGTAGATTAAAATGATTCCTCTAAAGCGGGCTTTTA
TAACTCCATGACTCCTTCCACTGTGCACTTGAGACTTTCTGAATCAGTCATCATCTTTGCCTTG
TCTACGTCAGTGTCTTTTGTAGCCAAGATTGACCAAGAGAGGTGGCAAAGAAGTATACAGTTTT
TGAGAATTGTCCTGAAATACTGTAATGGGAACCTTTAATATGAAAATGGCTTCCTTTTGACTTT
GGGATGTTTCCTGTGGATGATGTGGGTATGTGTGTACATATATATACATACTTTTTTAAATATA
GGCTAACAAGAGTCATGTCTTTCACTTTTAAGTTCAGGGAGCAGTTTGTTCTAACCACACAGAC
ATTCTCAGTGTGGTATTTCATGGAGCTTTAGAGACAAACTGGTATCTCATTATGTAATGAAATA
TAAACATACCATCATGTTATTTTAATGTCTTCAAATACATGATCTGAGGGGGGTGTGTCACACA
CTTGTGTACCAACTCTTAGTTGTGCCTTGAACATTTGCATTGACTACCTGCAAACAATTACTAG
GTTAACTAGAATTGCTATGCAGTTCTATCTTGCAAGTGCTACACAGTAACTGCAGTTTAAAGTA
TATTTGCACATTTTACATGCTATGCTATATGATTGCCTTTGGGTTTTCTGTACAGATTATTTTT
GTTGATATTCAATGAAAATTGTAGGCGGGAAATATATTGTTCCTATGTGAAGTAAATTGCTATA
ACCTGCAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001020887	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH99128	(Get FASTA)	NCBI Sequence Viewer
	EDL91749	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000003715
	ENSRNOP00000003715.4
	ENSRNOP00000089387.1

RefSeq Acc Id:

NP_001020887 ⟸ NM_001025716

- UniProtKB:

Q4KLL7 (UniProtKB/TrEMBL), A0A8I6GH80 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MASTNTNLQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYEAQGDKAKQSIRAKCTE
YLDRAEKLKEYLKKKEKKPQKPMKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIVIER
PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN
NSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKT
EFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS
LTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPC
SPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLKKFTEDFGQEG

hide sequence

RefSeq Acc Id:

ENSRNOP00000003715 ⟸ ENSRNOT00000003715

RefSeq Acc Id:

ENSRNOP00000089387 ⟸ ENSRNOT00000105495

Protein Domains

AAA+ ATPase MIT

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4KLL7-F1-model_v2	AlphaFold	Q4KLL7	1-444	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698751

Promoter ID:

EPDNEW_R9276

Type:

initiation region

Name:

Vps4b_1

Description:

vacuolar protein sorting 4 homolog B

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	26,850,483 - 26,850,543	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305969	AgrOrtholog
BioCyc Gene	G2FUF-18601	BioCyc
Ensembl Genes	ENSRNOG00000002705	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000003715	ENTREZGENE
	ENSRNOT00000003715.5	UniProtKB/TrEMBL
	ENSRNOT00000105495.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.8.60	UniProtKB/TrEMBL
	3.40.50.300	UniProtKB/TrEMBL
	Phosphotransferase system, lactose/cellobiose-type IIA subunit	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7459593	IMAGE-MGC_LOAD
InterPro	AAA_lid_3	UniProtKB/TrEMBL
	ATPase_AAA+_core	UniProtKB/TrEMBL
	ATPase_AAA_core	UniProtKB/TrEMBL
	ATPase_AAA_CS	UniProtKB/TrEMBL
	MIT	UniProtKB/TrEMBL
	MIT_dom_sf	UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/TrEMBL
	Vps4_C	UniProtKB/TrEMBL
	VPS4_MIT	UniProtKB/TrEMBL
KEGG Report	rno:360834	UniProtKB/TrEMBL
MGC_CLONE	MGC:116271	IMAGE-MGC_LOAD
NCBI Gene	360834	ENTREZGENE
PANTHER	AAA DOMAIN-CONTAINING	UniProtKB/TrEMBL
	PTHR23074:SF72	UniProtKB/TrEMBL
Pfam	AAA	UniProtKB/TrEMBL
	AAA_lid_3	UniProtKB/TrEMBL
	MIT	UniProtKB/TrEMBL
	Vps4_C	UniProtKB/TrEMBL
PhenoGen	Vps4b	PhenoGen
PROSITE	AAA	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000002705	RatGTEx
SMART	AAA	UniProtKB/TrEMBL
	MIT	UniProtKB/TrEMBL
Superfamily-SCOP	SSF116846	UniProtKB/TrEMBL
	SSF52540	UniProtKB/TrEMBL
UniProt	A0A8I6GH80	ENTREZGENE, UniProtKB/TrEMBL
	F7EZ84_RAT	UniProtKB/TrEMBL
	Q4KLL7	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-04-13	Vps4b	vacuolar protein sorting 4 homolog B	Vps4b	vacuolar protein sorting 4 homolog B (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-25	Vps4b	vacuolar protein sorting 4 homolog B (S. cerevisiae)	Vps4b	vacuolar protein sorting 4b (yeast)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Vps4b	vacuolar protein sorting 4b (yeast)	Vps4b_predicted	vacuolar protein sorting 4b (yeast) (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Vps4b_predicted	vacuolar protein sorting 4b (yeast) (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)

Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)