VPS4A (vacuolar protein sorting 4 homolog A) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: VPS4A (vacuolar protein sorting 4 homolog A) Sus scrofa
Analyze
Symbol: VPS4A
Name: vacuolar protein sorting 4 homolog A
RGD ID: 14107379
Description: ENCODES a protein that exhibits protein C-terminus binding (ortholog); protein domain specific binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN abscission (ortholog); endosomal vesicle fusion (ortholog); intracellular cholesterol transport (ortholog); PARTICIPATES IN autophagy pathway; FOUND IN centrosome (ortholog); cytoplasm (ortholog); cytosol (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: vacuolar protein sorting-associated protein 4A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1617,657,792 - 17,669,560 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2616,604,522 - 16,616,293 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:12226715   PMID:14681463   PMID:17407547  


Genomics

Comparative Map Data
VPS4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1617,657,792 - 17,669,560 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2616,604,522 - 16,616,293 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VPS4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1669,311,350 - 69,326,939 (+)EnsemblGRCh38hg38GRCh38
GRCh381669,311,350 - 69,326,939 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371669,345,253 - 69,360,842 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh371669,345,242 - 69,358,951 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361667,902,788 - 67,916,447 (+)NCBINCBI36hg18NCBI36
Build 341667,902,787 - 67,916,446NCBI
Celera1653,859,828 - 53,873,486 (+)NCBI
Cytogenetic Map16q22.1NCBI
HuRef1655,223,517 - 55,237,174 (+)NCBIHuRef
CHM1_11670,753,291 - 70,766,948 (+)NCBICHM1_1
Vps4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398107,757,901 - 107,772,392 (+)NCBIGRCm39mm39
GRCm388107,031,269 - 107,045,760 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8107,031,222 - 107,045,755 (+)EnsemblGRCm38mm10GRCm38
MGSCv378109,555,226 - 109,569,656 (+)NCBIGRCm37mm9NCBIm37
MGSCv368109,920,455 - 109,934,885 (+)NCBImm8
Celera8111,257,885 - 111,272,306 (+)NCBICelera
Cytogenetic Map8D3NCBI
Vps4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21934,934,999 - 34,948,267 (+)NCBI
Rnor_6.0 Ensembl1939,229,754 - 39,243,496 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01939,230,050 - 39,243,298 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01950,093,663 - 50,106,670 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41936,887,345 - 36,900,864 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11936,892,225 - 36,905,745 (+)NCBI
Celera1934,358,772 - 34,371,812 (+)NCBICelera
Cytogenetic Map19q12NCBI
Vps4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554847,368,938 - 7,375,964 (-)NCBIChiLan1.0ChiLan1.0
VPS4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11668,946,466 - 69,085,714 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01649,685,827 - 49,699,542 (+)NCBIMhudiblu_PPA_v0panPan3
VPS4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1580,327,059 - 80,340,380 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Vps4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647519,432,311 - 19,444,223 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS4A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1558,081,800 - 58,095,115 (-)NCBI
Vps4a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474617,044,173 - 17,059,295 (-)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 8
Low 10 4 3 5 2 15 2 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: NM_001243418   ⟹   NP_001230347
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1617,657,792 - 17,669,552 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005655767   ⟹   XP_005655824
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1617,657,792 - 17,669,560 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093432   ⟹   XP_020949091
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1617,657,792 - 17,669,560 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001230347 (Get FASTA)   NCBI Sequence Viewer  
  XP_005655824 (Get FASTA)   NCBI Sequence Viewer  
  XP_020949091 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005655824   ⟸   XM_005655767
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020949091   ⟸   XM_021093432
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001230347   ⟸   NM_001243418
- UniProtKB: I3LL27 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
AAA   MIT


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000025151 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070000459 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000024793 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000073897 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070000763 UniProtKB/TrEMBL
  ENSSSCP00070000800 UniProtKB/TrEMBL
  ENSSSCP00070000805 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000026219 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000084872 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070000874 UniProtKB/TrEMBL
  ENSSSCT00070000917 UniProtKB/TrEMBL
  ENSSSCT00070000922 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  AAA_lid_3 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 UniProtKB/TrEMBL
  Vps4_C UniProtKB/TrEMBL
NCBI Gene VPS4A ENTREZGENE
PANTHER 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 A0A4X1SF26_PIG UniProtKB/TrEMBL
  A0A4X1SF31_PIG UniProtKB/TrEMBL
  A0A4X1SFZ5_PIG UniProtKB/TrEMBL
  A0A5G2RG39_PIG UniProtKB/TrEMBL
  I3LL27 ENTREZGENE, UniProtKB/TrEMBL