Vps13a (vacuolar protein sorting 13 homolog A) - Rat Genome Database

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Gene: Vps13a (vacuolar protein sorting 13 homolog A) Heterocephalus glaber
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Symbol: Vps13a
Name: vacuolar protein sorting 13 homolog A
RGD ID: 18927649
Description: INVOLVED IN adult locomotory behavior (ortholog); autophagy (ortholog); brain-derived neurotrophic factor receptor signaling pathway (ortholog); ASSOCIATED WITH choreaacanthocytosis (ortholog); choreatic disease (ortholog); genetic disease (ortholog); FOUND IN dense core granule (ortholog); endoplasmic reticulum (ortholog); endoplasmic reticulum membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vacuolar protein sorting-associated protein 13A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248114,640,090 - 4,901,510 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248114,639,926 - 4,902,749 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Vps13a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248114,640,090 - 4,901,510 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248114,639,926 - 4,902,749 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
VPS13A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38977,177,534 - 77,421,537 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl977,177,445 - 77,421,537 (+)EnsemblGRCh38hg38GRCh38
GRCh37979,792,450 - 80,036,453 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36978,982,181 - 79,222,219 (+)NCBINCBI36Build 36hg18NCBI36
Celera950,369,484 - 50,609,533 (+)NCBICelera
Cytogenetic Map9q21.2NCBI
HuRef949,623,817 - 49,863,840 (+)NCBIHuRef
CHM1_1979,938,844 - 80,179,199 (+)NCBICHM1_1
T2T-CHM13v2.0989,334,100 - 89,578,104 (+)NCBIT2T-CHM13v2.0
Vps13a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391916,592,730 - 16,758,433 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1916,592,730 - 16,758,297 (-)EnsemblGRCm39 Ensembl
GRCm381916,615,366 - 16,781,071 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1916,615,366 - 16,780,933 (-)EnsemblGRCm38mm10GRCm38
MGSCv371916,691,164 - 16,855,417 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361916,683,693 - 16,847,946 (-)NCBIMGSCv36mm8
Celera1917,275,535 - 17,440,000 (-)NCBICelera
Cytogenetic Map19A- BNCBI
cM Map1911.71NCBI
Vps13a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81223,328,784 - 223,555,500 (-)NCBIGRCr8
mRatBN7.21213,901,999 - 214,128,638 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1213,901,999 - 214,128,555 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,230,525 - 222,462,915 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01229,165,841 - 229,392,426 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01221,985,083 - 222,217,463 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01235,352,513 - 235,813,597 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1235,653,121 - 235,813,030 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01242,670,357 - 243,128,666 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41219,987,826 - 220,221,494 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11220,153,337 - 220,385,366 (-)NCBI
Celera1211,235,485 - 211,455,239 (-)NCBICelera
Cytogenetic Map1q43NCBI
Vps13a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555122,039,115 - 2,267,099 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555122,037,803 - 2,267,197 (-)NCBIChiLan1.0ChiLan1.0
VPS13A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21176,337,834 - 76,581,678 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1976,343,550 - 76,587,617 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0947,424,921 - 47,668,150 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1976,032,292 - 76,275,155 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl976,032,286 - 76,269,636 (+)Ensemblpanpan1.1panPan2
VPS13A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1181,191,125 - 81,426,337 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl181,192,349 - 81,426,322 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha181,654,790 - 81,889,759 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0181,603,680 - 81,839,234 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl181,604,885 - 81,839,239 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1181,389,076 - 81,624,112 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0181,110,788 - 81,346,344 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0181,839,940 - 82,075,231 (-)NCBIUU_Cfam_GSD_1.0
Vps13a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947128,315,230 - 128,566,983 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650312,606,014 - 12,858,005 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650312,606,019 - 12,857,807 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS13A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1230,069,368 - 230,331,200 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11230,069,339 - 230,331,343 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21256,783,098 - 256,879,557 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS13A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11288,140,842 - 88,380,966 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1288,167,258 - 88,379,614 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603876,526,493 - 76,716,430 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004862535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_004862538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_004862539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021242734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01075905 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075907 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075915 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01075916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GEBF01004941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000000698   ⟹   ENSHGLP00000000658
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248114,640,090 - 4,901,510 (+)Ensembl
RefSeq Acc Id: XM_004862535   ⟹   XP_004862592
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248114,639,926 - 4,902,749 (+)NCBI
RefSeq Acc Id: XM_004862538   ⟹   XP_004862595
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248114,640,090 - 4,876,319 (+)NCBI
RefSeq Acc Id: XM_004862539   ⟹   XP_004862596
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248114,640,090 - 4,874,613 (+)NCBI
RefSeq Acc Id: XM_021242734   ⟹   XP_021098393
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248114,639,926 - 4,902,749 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004862592 (Get FASTA)   NCBI Sequence Viewer  
  XP_004862595 (Get FASTA)   NCBI Sequence Viewer  
  XP_004862596 (Get FASTA)   NCBI Sequence Viewer  
  XP_021098393 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000000658
GenBank Protein JAN98691 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_004862592   ⟸   XM_004862535
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J7S9 (UniProtKB/TrEMBL),   G5BLA4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098393   ⟸   XM_021242734
- Peptide Label: isoform X2
- UniProtKB: G5BLA4 (UniProtKB/TrEMBL),   A0AAX6RQ01 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004862595   ⟸   XM_004862538
- Peptide Label: isoform X3
- UniProtKB: G5BLA4 (UniProtKB/TrEMBL),   A0AAX6PXG6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004862596   ⟸   XM_004862539
- Peptide Label: isoform X4
- UniProtKB: G5BLA4 (UniProtKB/TrEMBL),   A0AAX6Q0X0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000000658   ⟸   ENSHGLT00000000698


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000000572 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000000698 ENTREZGENE
InterPro Autophagy-rel_C UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13-like_N UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
  VPS13_N2 UniProtKB/TrEMBL
KEGG Report hgl:101714122 UniProtKB/TrEMBL
NCBI Gene Vps13a ENTREZGENE
PANTHER PTHR16166 UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 13A UniProtKB/TrEMBL
Pfam ATG_C UniProtKB/TrEMBL
  Chorein_N UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
UniProt A0A0P6J7S9 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6PXG6 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6Q0X0 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RQ01 ENTREZGENE, UniProtKB/TrEMBL
  G5BLA4 ENTREZGENE, UniProtKB/TrEMBL