Vps4b (vacuolar protein sorting 4 homolog B) - Rat Genome Database

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Gene: Vps4b (vacuolar protein sorting 4 homolog B) Ictidomys tridecemlineatus
Analyze
Symbol: Vps4b
Name: vacuolar protein sorting 4 homolog B
RGD ID: 12693446
Description: ENCODES a protein that exhibits ATP binding (inferred); ATP hydrolysis activity (inferred); identical protein binding (inferred); INVOLVED IN angiogenesis (ortholog); canonical Wnt signaling pathway (ortholog); central nervous system development (ortholog); ASSOCIATED WITH chromosome 18q deletion syndrome (ortholog); multiple congenital anomalies-hypotonia-seizures syndrome 1 (ortholog); FOUND IN centrosome (inferred); cytoplasm (inferred); cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vacuolar protein sorting-associated protein 4B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494426,887,096 - 26,922,486 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364972,126,061 - 2,161,485 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364972,126,064 - 2,161,451 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Vps4b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494426,887,096 - 26,922,486 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364972,126,061 - 2,161,485 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364972,126,064 - 2,161,451 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS4B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381863,389,190 - 63,422,476 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1863,389,190 - 63,422,483 (-)EnsemblGRCh38hg38GRCh38
GRCh371861,056,423 - 61,089,709 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361859,207,403 - 59,240,732 (-)NCBINCBI36Build 36hg18NCBI36
Build 341859,207,406 - 59,240,673NCBI
Celera1857,776,059 - 57,809,388 (-)NCBICelera
Cytogenetic Map18q21.33NCBI
HuRef1857,754,990 - 57,788,280 (-)NCBIHuRef
CHM1_11861,052,390 - 61,085,722 (-)NCBICHM1_1
T2T-CHM13v2.01863,594,233 - 63,627,515 (-)NCBIT2T-CHM13v2.0
Vps4b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391106,698,518 - 106,724,455 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1106,691,801 - 106,724,458 (-)EnsemblGRCm39 Ensembl
GRCm381106,770,788 - 106,796,725 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1106,764,071 - 106,796,728 (-)EnsemblGRCm38mm10GRCm38
MGSCv371108,667,365 - 108,693,302 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361108,598,705 - 108,624,223 (-)NCBIMGSCv36mm8
Celera1109,620,154 - 109,646,158 (-)NCBICelera
Cytogenetic Map1E2.1NCBI
cM Map150.1NCBI
Vps4b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81323,421,758 - 23,446,848 (-)NCBIGRCr8
mRatBN7.21322,907,105 - 22,932,200 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1322,907,109 - 22,932,229 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1323,229,947 - 23,255,030 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01324,514,416 - 24,539,500 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01323,200,133 - 23,225,220 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01326,825,261 - 26,850,460 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1326,825,261 - 26,850,460 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01331,975,737 - 32,000,936 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41312,959,843 - 12,984,933 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11312,959,842 - 12,984,933 (-)NCBI
Celera1322,765,509 - 22,790,596 (-)NCBICelera
Cytogenetic Map13p11NCBI
Vps4b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540247,154,007 - 47,184,021 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540247,154,350 - 47,183,979 (-)NCBIChiLan1.0ChiLan1.0
VPS4B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21780,900,440 - 80,933,640 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11866,593,051 - 66,626,392 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01856,749,439 - 56,782,660 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11860,062,080 - 60,095,109 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1860,060,285 - 60,095,109 (-)Ensemblpanpan1.1panPan2
VPS4B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1113,638,965 - 13,673,295 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl113,639,004 - 13,669,072 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha114,605,156 - 14,639,495 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0113,500,614 - 13,534,990 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl113,500,669 - 13,534,959 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1113,538,762 - 13,573,109 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0113,468,029 - 13,502,377 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0113,716,838 - 13,751,163 (+)NCBIUU_Cfam_GSD_1.0
VPS4B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1158,233,070 - 158,270,679 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11158,233,039 - 158,273,533 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21175,754,073 - 175,760,220 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS4B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11816,336,959 - 16,370,208 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1816,336,921 - 16,370,291 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660609,317,729 - 9,350,925 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps4b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247929,098,291 - 9,128,931 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005323008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSTOT00000021775   ⟹   ENSSTOP00000019967
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364972,126,061 - 2,161,485 (+)Ensembl
RefSeq Acc Id: XM_005323008   ⟹   XP_005323065
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494426,887,096 - 26,922,486 (+)NCBI
SpeTri2.0NW_0049364972,126,064 - 2,161,451 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005323065 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000019967.1
GenBank Protein KAG3293771 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005323065   ⟸   XM_005323008
- UniProtKB: I3N6H1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSTOP00000019967   ⟸   ENSSTOT00000021775
Protein Domains
AAA+ ATPase   MIT


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000022926 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000021775.2 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
InterPro AAA+_ATPase UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/TrEMBL
  ATPase_AAA_CS UniProtKB/TrEMBL
  MIT_dom UniProtKB/TrEMBL
  MIT_dom_sf UniProtKB/TrEMBL
  MT-severing_AAA_ATPase UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Vps4_C UniProtKB/TrEMBL
  VPS4_MIT UniProtKB/TrEMBL
NCBI Gene Vps4b 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
PROSITE AAA UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
  MIT UniProtKB/TrEMBL
Superfamily-SCOP SSF116846 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt I3N6H1 ENTREZGENE, UniProtKB/TrEMBL