Vps9d1 (VPS9 domain containing 1) - Rat Genome Database

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Gene: Vps9d1 (VPS9 domain containing 1) Heterocephalus glaber
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Symbol: Vps9d1
Name: VPS9 domain containing 1
RGD ID: 18915251
Description: ENCODES a protein that exhibits guanyl-nucleotide exchange factor activity (inferred); identical protein binding (inferred); small GTPase binding (inferred); INVOLVED IN vesicle-mediated transport (inferred); ASSOCIATED WITH autosomal recessive chronic granulomatous disease 4 (ortholog); Fanconi anemia (ortholog); Fanconi anemia complementation group A (ortholog); FOUND IN cytosol (inferred); endocytic vesicle (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: VPS9 domain-containing protein 1
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_004624746267,006 - 276,691 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624746266,789 - 277,225 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:21993625   PMID:30032202  


Genomics

Comparative Map Data
Vps9d1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624746267,006 - 276,691 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624746266,789 - 277,225 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
VPS9D1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381689,707,134 - 89,720,898 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1689,707,134 - 89,720,898 (-)EnsemblGRCh38hg38GRCh38
GRCh371689,773,542 - 89,787,306 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361688,301,042 - 88,314,895 (-)NCBINCBI36Build 36hg18NCBI36
Build 341688,301,042 - 88,313,278NCBI
Celera1674,837,975 - 74,851,643 (-)NCBICelera
Cytogenetic Map16q24.3NCBI
HuRef1675,468,813 - 75,482,474 (-)NCBIHuRef
CHM1_11691,184,765 - 91,198,622 (-)NCBICHM1_1
T2T-CHM13v2.01695,791,896 - 95,805,664 (-)NCBIT2T-CHM13v2.0
Vps9d1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,969,095 - 123,980,961 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8123,969,095 - 123,981,087 (-)EnsemblGRCm39 Ensembl
GRCm388123,242,356 - 123,254,222 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8123,242,356 - 123,254,348 (-)EnsemblGRCm38mm10GRCm38
MGSCv378125,766,256 - 125,778,075 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368126,128,445 - 126,140,306 (-)NCBIMGSCv36mm8
Celera8127,481,945 - 127,493,744 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map872.09NCBI
Vps9d1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81968,185,517 - 68,199,469 (-)NCBIGRCr8
mRatBN7.21951,276,998 - 51,290,726 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,277,000 - 51,290,634 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1958,071,899 - 58,085,505 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,751,919 - 58,765,534 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,970,505 - 60,984,111 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01956,040,527 - 56,054,199 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,040,529 - 56,054,142 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,745,400 - 66,759,058 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41953,560,828 - 53,574,437 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1950,512,859 - 50,526,474 (-)NCBICelera
Cytogenetic Map19q12NCBI
Vps9d1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555413,249,293 - 3,258,839 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555413,248,384 - 3,258,856 (-)NCBIChiLan1.0ChiLan1.0
VPS9D1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21899,553,714 - 99,568,041 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116105,443,181 - 105,457,439 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01670,465,158 - 70,479,141 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11690,130,415 - 90,144,412 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1690,130,415 - 90,144,412 (-)Ensemblpanpan1.1panPan2
VPS9D1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1563,858,158 - 63,870,167 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl563,859,134 - 63,870,158 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha563,870,697 - 63,883,019 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0564,085,629 - 64,097,948 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl564,085,603 - 64,097,946 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1564,105,730 - 64,118,064 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0563,943,337 - 63,955,678 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0564,349,891 - 64,362,238 (+)NCBIUU_Cfam_GSD_1.0
Vps9d1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934924,580,013 - 24,590,927 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936641334,604 - 343,787 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936641334,571 - 344,474 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS9D1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6313,783 - 324,022 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16313,713 - 324,026 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26440,290 - 450,590 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS9D1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1575,044,282 - 75,057,744 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl575,044,790 - 75,057,135 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666047438,279 - 451,103 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000013607   ⟹   ENSHGLP00000013467
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624746267,006 - 276,691 (+)Ensembl
RefSeq Acc Id: XM_004842622   ⟹   XP_004842679
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746267,646 - 277,225 (+)NCBI
RefSeq Acc Id: XM_004842625   ⟹   XP_004842682
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746266,789 - 277,225 (+)NCBI
RefSeq Acc Id: XM_021256542   ⟹   XP_021112201
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746267,644 - 277,225 (+)NCBI
RefSeq Acc Id: XM_021256543   ⟹   XP_021112202
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746267,644 - 277,225 (+)NCBI
RefSeq Acc Id: XM_021256544   ⟹   XP_021112203
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746266,789 - 277,225 (+)NCBI
RefSeq Acc Id: XM_021256545   ⟹   XP_021112204
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746266,789 - 277,225 (+)NCBI
RefSeq Acc Id: XM_021256546   ⟹   XP_021112205
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624746267,644 - 277,225 (+)NCBI
RefSeq Acc Id: XP_021112203   ⟸   XM_021256544
- Peptide Label: isoform X4
- UniProtKB: A0AAX6SU57 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004842682   ⟸   XM_004842625
- Peptide Label: isoform X6
- UniProtKB: G5APH7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021112204   ⟸   XM_021256545
- Peptide Label: isoform X5
- UniProtKB: A0AAX6STW6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021112201   ⟸   XM_021256542
- Peptide Label: isoform X1
- UniProtKB: A0AAX6SRA1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021112205   ⟸   XM_021256546
- Peptide Label: isoform X7
- UniProtKB: A0AAX6SUP6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021112202   ⟸   XM_021256543
- Peptide Label: isoform X2
- UniProtKB: A0AAX6SSX8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004842679   ⟸   XM_004842622
- Peptide Label: isoform X3
- UniProtKB: A0AAX6P2V3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000013467   ⟸   ENSHGLT00000013607


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000009627 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000013607 ENTREZGENE
  ENSHGLT00000067100 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1050.80 UniProtKB/TrEMBL
  Phosphotransferase system, lactose/cellobiose-type IIA subunit UniProtKB/TrEMBL
InterPro MIT_dom_sf UniProtKB/TrEMBL
  VPS9 UniProtKB/TrEMBL
  Vps9-like UniProtKB/TrEMBL
  VPS9_dom_sf UniProtKB/TrEMBL
NCBI Gene Vps9d1 ENTREZGENE
PANTHER PTHR23101 UniProtKB/TrEMBL
  VPS9 DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
Pfam VPS9 UniProtKB/TrEMBL
PROSITE VPS9 UniProtKB/TrEMBL
SMART VPS9 UniProtKB/TrEMBL
Superfamily-SCOP SSF109993 UniProtKB/TrEMBL
  SSF116846 UniProtKB/TrEMBL
UniProt A0AAX6P2V3 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SRA1 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SSX8 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6STW6 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SU57 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SUP6 ENTREZGENE, UniProtKB/TrEMBL
  G5APH7 ENTREZGENE, UniProtKB/TrEMBL