Vps9d1 (VPS9 domain containing 1) - Rat Genome Database

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Gene: Vps9d1 (VPS9 domain containing 1) Mus musculus
Analyze
Symbol: Vps9d1
Name: VPS9 domain containing 1
RGD ID: 1557760
MGI Page MGI
Description: Predicted to enable guanyl-nucleotide exchange factor activity; identical protein binding activity; and small GTPase binding activity. Predicted to be involved in vesicle-mediated transport. Predicted to be active in cytosol and endocytic vesicle. Is expressed in several structures, including cardiovascular system; genitourinary system; gut; liver and biliary system; and nervous system. Orthologous to human VPS9D1 (VPS9 domain containing 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1300018I17Rik; 2410004N05Rik; 5-day ovary-specific transcript 1 protein; 5DOS1; hypothetical protein LOC72325; uncharacterized protein C16orf7 homolog; VPS9 domain-containing protein 1; VSP9 domain containing 1; Vsp9d1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16944949   PMID:18804091   PMID:20059953  
PMID:21267068   PMID:21677750   PMID:21873635   PMID:24194600   PMID:29617656   PMID:32325033  


Genomics

Comparative Map Data
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
(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
(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
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

Variants

.
Variants in Vps9d1
418 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3394
Count of miRNA genes:762
Interacting mature miRNAs:989
Transcripts:ENSMUST00000117643, ENSMUST00000118279, ENSMUST00000122363, ENSMUST00000124508, ENSMUST00000127978, ENSMUST00000129591, ENSMUST00000130275, ENSMUST00000130965, ENSMUST00000137569, ENSMUST00000146136, ENSMUST00000149490, ENSMUST00000155853, ENSMUST00000155869
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871740461124622354Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71740461124622354Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)874126628126826739Mouse
27226796Scvln16_msacral vertebrae length 2, 16 week (mouse)889726628130027694Mouse
1357494Obsty2_mobesity 2 (mouse)Not determined896245241129745061Mouse
12880431Fgf23lq2_mFGF23 serum level QTL 2 (mouse)897626632130127694Mouse
11252141Fdr2_mfat response to dietary restriction 2 (mouse)898390634130127694Mouse
1301481Lith11_mlithogenic gene 11 (mouse)Not determined898563635130127694Mouse
1302105Im1_mImmunoregulatory 1 (mouse)Not determined899828531130127694Mouse
1301080Sluc9_msusceptibility to lung cancer 9 (mouse)Not determined899828531130127694Mouse
4141435Fbtq3_mfemoral bone trait QTL 3 (mouse)Not determined8100965309130127694Mouse
1301316Dntcs1_mdental caries susceptibility 1 (mouse)Not determined8103443553127781786Mouse
11532691Sluc38_msusceptibility to lung cancer 38 (mouse)8105033977130127694Mouse
11532692Sluc38a_msusceptibility to lung cancer 38a (mouse)8105033977130127694Mouse
14746994Manh65_mmandible shape 65 (mouse)8106489629130127694Mouse
10412273Fcd1_mfunctional capillary density 1 (mouse)Not determined8110415083130127694Mouse
10412274Leci1_mleukocyte endothelial cell interactions 1 (mouse)Not determined8110415083130127694Mouse
12904938Edlmmq7_mextensor digitorum longus muscle mass QTL 7 (mouse)8111481497130127694Mouse
12904960Gmmq6_mgastrocnemius muscle mass QTL 6 (mouse)8111481497130127694Mouse
4141546Mrdq3_mmodifier of retinal degeneration QTL 3 (mouse)Not determined114439420126055880Mouse
26884375Skwq2_mskull length QTL 2, 5 week (mouse)8120726739130027694Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001310661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_028200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006531390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001778475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003947341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003947342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003947343 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004934889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC155810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC163617 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK005046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK009694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK010402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK028751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK032561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK051715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK151498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154409 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK155433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK209191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK210076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK212484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK218831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY751521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC021813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC057621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ033590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BU053861 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000117643   ⟹   ENSMUSP00000113748
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,097 - 123,980,915 (-)Ensembl
GRCm38.p6 Ensembl8123,242,358 - 123,254,176 (-)Ensembl
RefSeq Acc Id: ENSMUST00000118279   ⟹   ENSMUSP00000113634
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,098 - 123,980,831 (-)Ensembl
GRCm38.p6 Ensembl8123,242,359 - 123,254,092 (-)Ensembl
RefSeq Acc Id: ENSMUST00000122363   ⟹   ENSMUSP00000113575
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,095 - 123,981,087 (-)Ensembl
GRCm38.p6 Ensembl8123,242,356 - 123,254,348 (-)Ensembl
RefSeq Acc Id: ENSMUST00000124508
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,973,596 - 123,974,752 (-)Ensembl
GRCm38.p6 Ensembl8123,246,857 - 123,248,013 (-)Ensembl
RefSeq Acc Id: ENSMUST00000127978
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,973,255 - 123,974,735 (-)Ensembl
GRCm38.p6 Ensembl8123,246,516 - 123,247,996 (-)Ensembl
RefSeq Acc Id: ENSMUST00000129591
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,976,451 - 123,980,789 (-)Ensembl
GRCm38.p6 Ensembl8123,249,712 - 123,254,050 (-)Ensembl
RefSeq Acc Id: ENSMUST00000130275
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,971,686 - 123,980,844 (-)Ensembl
GRCm38.p6 Ensembl8123,244,947 - 123,254,105 (-)Ensembl
RefSeq Acc Id: ENSMUST00000130965
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,975,292 - 123,975,722 (-)Ensembl
GRCm38.p6 Ensembl8123,248,553 - 123,248,983 (-)Ensembl
RefSeq Acc Id: ENSMUST00000137569
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,975,567 - 123,977,810 (-)Ensembl
GRCm38.p6 Ensembl8123,248,828 - 123,251,071 (-)Ensembl
RefSeq Acc Id: ENSMUST00000146136
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,097 - 123,980,902 (-)Ensembl
GRCm38.p6 Ensembl8123,242,358 - 123,254,163 (-)Ensembl
RefSeq Acc Id: ENSMUST00000149490
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,095 - 123,980,961 (-)Ensembl
GRCm38.p6 Ensembl8123,242,356 - 123,254,222 (-)Ensembl
RefSeq Acc Id: ENSMUST00000155853
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,971,882 - 123,973,669 (-)Ensembl
GRCm38.p6 Ensembl8123,245,143 - 123,246,930 (-)Ensembl
RefSeq Acc Id: ENSMUST00000155869   ⟹   ENSMUSP00000122184
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8123,969,097 - 123,980,848 (-)Ensembl
GRCm38.p6 Ensembl8123,242,358 - 123,254,109 (-)Ensembl
RefSeq Acc Id: NM_001310661   ⟹   NP_001297590
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,961 (-)NCBI
GRCm388123,242,356 - 123,254,222 (-)NCBI
Sequence:
RefSeq Acc Id: NM_028200   ⟹   NP_082476
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,961 (-)NCBI
GRCm388123,242,356 - 123,254,222 (-)NCBI
MGSCv378125,766,256 - 125,778,075 (-)RGD
Celera8127,481,945 - 127,493,744 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006531390   ⟹   XP_006531453
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,952 (-)NCBI
GRCm388123,242,356 - 123,254,213 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030243787   ⟹   XP_030099647
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,899 (-)NCBI
GRCm388123,242,356 - 123,254,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030243788   ⟹   XP_030099648
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,873 (-)NCBI
GRCm388123,242,356 - 123,254,204 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001778475
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,956 (-)NCBI
GRCm388123,242,356 - 123,254,217 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003947341
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,940 (-)NCBI
GRCm388123,242,356 - 123,254,208 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003947342
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,956 (-)NCBI
GRCm388123,242,356 - 123,254,217 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003947343
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,940 (-)NCBI
GRCm388123,242,356 - 123,254,210 (-)NCBI
Sequence:
RefSeq Acc Id: XR_004934889
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398123,969,095 - 123,980,956 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_082476   ⟸   NM_028200
- Peptide Label: isoform 2
- UniProtKB: Q6PFD1 (UniProtKB/Swiss-Prot),   Q8C190 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006531453   ⟸   XM_006531390
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001297590   ⟸   NM_001310661
- Peptide Label: isoform 1
- UniProtKB: Q3U280 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_030099648   ⟸   XM_030243788
- Peptide Label: isoform X2
RefSeq Acc Id: XP_030099647   ⟸   XM_030243787
- Peptide Label: isoform X2
RefSeq Acc Id: ENSMUSP00000113634   ⟸   ENSMUST00000118279
RefSeq Acc Id: ENSMUSP00000113748   ⟸   ENSMUST00000117643
RefSeq Acc Id: ENSMUSP00000113575   ⟸   ENSMUST00000122363
RefSeq Acc Id: ENSMUSP00000122184   ⟸   ENSMUST00000155869
Protein Domains
VPS9

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8C190-F1-model_v2 AlphaFold Q8C190 1-649 view protein structure

Promoters
RGD ID:8668565
Promoter ID:EPDNEW_M12313
Type:multiple initiation site
Name:Vps9d1_1
Description:Mus musculus VPS9 domain containing 1 , transcript variant 2,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M12314  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388123,254,109 - 123,254,169EPDNEW
RGD ID:8668567
Promoter ID:EPDNEW_M12314
Type:initiation region
Name:Vps9d1_2
Description:Mus musculus VPS9 domain containing 1 , transcript variant 2,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M12313  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388123,254,210 - 123,254,270EPDNEW
RGD ID:6848240
Promoter ID:MM_ACW:49226
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver,   Lung
Transcripts:1300018I17RIK.NSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv368125,766,386 - 125,766,886 (-)MPROMDB
RGD ID:6842676
Promoter ID:MM_KWN:56057
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   Kidney,   Lung,   MEF_B4
Transcripts:ENSMUST00000117643,   ENSMUST00000122363,   OTTMUST00000074629,   OTTMUST00000074631,   OTTMUST00000074635,   UC009NUS.1,   UC009NUT.1,   UC009NUX.1,   UC009NUZ.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv368125,777,824 - 125,778,324 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914143 AgrOrtholog
Ensembl Genes ENSMUSG00000001062 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000117643.9 UniProtKB/Swiss-Prot
  ENSMUST00000118279 ENTREZGENE
  ENSMUST00000118279.2 UniProtKB/TrEMBL
  ENSMUST00000122363 ENTREZGENE
  ENSMUST00000122363.8 UniProtKB/Swiss-Prot
  ENSMUST00000146136 ENTREZGENE
  ENSMUST00000155869 ENTREZGENE
  ENSMUST00000155869.8 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1050.80 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Phosphotransferase system, lactose/cellobiose-type IIA subunit UniProtKB/TrEMBL
InterPro MIT_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VPS9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps9-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VPS9_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:72325 UniProtKB/Swiss-Prot
MGD MGI:1914143 ENTREZGENE
NCBI Gene 72325 ENTREZGENE
PANTHER PTHR23101 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VPS9 DOMAIN-CONTAINING PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam VPS9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vps9d1 PhenoGen
PROSITE VPS9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART VPS9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF109993 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF116846 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D6RGB6_MOUSE UniProtKB/TrEMBL
  Q3U280 ENTREZGENE, UniProtKB/TrEMBL
  Q6PFD1 ENTREZGENE
  Q8C190 ENTREZGENE
  Q8VDI6_MOUSE UniProtKB/TrEMBL
  VP9D1_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q6PFD1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-12 Vps9d1  VPS9 domain containing 1  Vsp9d1  VSP9 domain containing 1  Symbol and/or name change 5135510 APPROVED
2012-11-27 Vsp9d1  VSP9 domain containing 1  1300018I17Rik  RIKEN cDNA 1300018I17 gene  Symbol and/or name change 5135510 APPROVED