Atp6v1f (ATPase, H+ transporting, lysosomal V1 subunit F) - Rat Genome Database

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Gene: Atp6v1f (ATPase, H+ transporting, lysosomal V1 subunit F) Mus musculus
Analyze
Symbol: Atp6v1f
Name: ATPase, H+ transporting, lysosomal V1 subunit F
RGD ID: 1332038
MGI Page MGI
Description: Predicted to enable proton-transporting ATPase activity, rotational mechanism. Involved in synaptic vesicle lumen acidification. Part of proton-transporting V-type ATPase complex. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; nose; and respiratory system. Orthologous to human ATP6V1F (ATPase H+ transporting V1 subunit F).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1110004G16Rik; ATPase, H+ transporting, V1 subunit F; ATPase, vacuolar, 14 kD; V-ATPase 14 kDa subunit; V-ATPase subunit F; V-type proton ATPase subunit F; vacuolar proton pump subunit F
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Gm57481  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39629,467,782 - 29,470,508 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl629,467,717 - 29,470,511 (+)EnsemblGRCm39 Ensembl
GRCm38629,467,783 - 29,470,509 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl629,467,718 - 29,470,512 (+)EnsemblGRCm38mm10GRCm38
MGSCv37629,417,783 - 29,420,509 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36629,417,793 - 29,420,519 (+)NCBIMGSCv36mm8
Celera629,475,661 - 29,478,387 (+)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.36NCBI
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

Biological Process

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
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. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. 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.
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. 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:12527205   PMID:14610273   PMID:14681479   PMID:15489334   PMID:15976442   PMID:16141072   PMID:16141073  
PMID:17062627   PMID:18752060   PMID:18799693   PMID:19521500   PMID:21126173   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22496890   PMID:26442671   PMID:27368196   PMID:28793259  
PMID:30409884   PMID:30595499   PMID:31235642   PMID:32325033   PMID:38355793  


Genomics

Comparative Map Data
Atp6v1f
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39629,467,782 - 29,470,508 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl629,467,717 - 29,470,511 (+)EnsemblGRCm39 Ensembl
GRCm38629,467,783 - 29,470,509 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl629,467,718 - 29,470,512 (+)EnsemblGRCm38mm10GRCm38
MGSCv37629,417,783 - 29,420,509 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36629,417,793 - 29,420,519 (+)NCBIMGSCv36mm8
Celera629,475,661 - 29,478,387 (+)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.36NCBI
ATP6V1F
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387128,862,856 - 128,865,847 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7128,862,856 - 128,865,847 (+)EnsemblGRCh38hg38GRCh38
GRCh377128,502,910 - 128,505,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367128,290,134 - 128,293,138 (+)NCBINCBI36Build 36hg18NCBI36
Build 347128,096,848 - 128,099,853NCBI
Celera7123,299,412 - 123,302,416 (+)NCBICelera
Cytogenetic Map7q32.1NCBI
HuRef7122,864,496 - 122,867,540 (+)NCBIHuRef
CHM1_17128,436,151 - 128,439,197 (+)NCBICHM1_1
T2T-CHM13v2.07130,175,783 - 130,178,774 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27127,886,602 - 127,889,648 (+)NCBI
Atp6v1f
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8459,033,020 - 59,035,980 (+)NCBIGRCr8
mRatBN7.2458,067,666 - 58,070,628 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx463,050,712 - 63,053,652 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0458,966,874 - 58,969,814 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0457,368,753 - 57,371,693 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0456,744,563 - 56,747,657 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,744,561 - 56,747,656 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0456,511,724 - 56,514,818 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4456,347,184 - 56,350,085 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1456,605,455 - 56,609,468 (+)NCBI
Celera453,175,569 - 53,178,529 (+)NCBICelera
Cytogenetic Map4q22NCBI
Atp6v1f
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554799,664,574 - 9,667,667 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554799,664,574 - 9,667,667 (+)NCBIChiLan1.0ChiLan1.0
ATP6V1F
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26165,667,153 - 165,670,444 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1717,677,399 - 17,680,690 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07120,814,560 - 120,817,612 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17133,339,279 - 133,342,423 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7133,339,284 - 133,342,423 (+)Ensemblpanpan1.1panPan2
ATP6V1F
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1147,786,841 - 7,789,584 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl147,786,844 - 7,789,548 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha147,473,699 - 7,476,441 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0147,552,723 - 7,555,466 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl147,552,726 - 7,555,430 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1147,757,752 - 7,760,490 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0147,499,763 - 7,502,507 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0147,645,178 - 7,647,919 (-)NCBIUU_Cfam_GSD_1.0
Atp6v1f
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511854,663,836 - 54,666,585 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647915,787,629 - 15,790,265 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647915,787,609 - 15,790,354 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP6V1F
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1819,753,506 - 19,756,648 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11819,753,761 - 19,756,706 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21820,885,979 - 20,888,924 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATP6V1F
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12197,464,741 - 97,467,749 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2197,464,146 - 97,468,370 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660425,934,352 - 5,937,781 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atp6v1f
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247837,328,113 - 7,331,666 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247837,328,113 - 7,331,648 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atp6v1f
181 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:444
Count of miRNA genes:214
Interacting mature miRNAs:234
Transcripts:ENSMUST00000004396, ENSMUST00000143101, ENSMUST00000149646
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
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
11353836Bmiq1_mbody mass index QTL 1 (mouse)6450382329751333Mouse
4140989Spqq2_msperm quality QTL 2 (mouse)Not determined1771159851711719Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080576983Mouse
1357520Axtq2_manxiety QTL 2 (mouse)Not determined6450382348703611Mouse
10043869Cia6a_mcollagen induced arthritis QTL 6a (mouse)Not determined61211797146118069Mouse
1301850Fglu_mfasting glucose (mouse)Not determined61771159851711719Mouse
4141749Obrq2_mobesity resistance QTL 2 (mouse)Not determined1275122146751333Mouse
1301724Pcd4ts1_mp-glycoprotein positive CD4 T cell subset 1 (mouse)Not determined61771159851711719Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
10412107Desp4_mdespair 4 (mouse)Not determined62004983054049830Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414773364675Mouse
1301131Chol2_mcholesterol 2 (mouse)Not determined6132144495Mouse
1302024Skull7_mskull morphology 7 (mouse)Not determined6132144495Mouse
4141988Obrq3_mobesity resistance QTL 3 (mouse)Not determined2829099362291115Mouse
11353841Bmiq3_mbody mass index QTL 3 (mouse)6450382348703611Mouse
11353840Bmiq2_mbody mass index QTL 2 (mouse)6450382345291115Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
5491191Mobq2_mmultigenic obesity QTL 2 (mouse)Not determined6132144495Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
1300731Smdq3_msegregation of mitochondrial DNA QTL 3 (mouse)Not determined6424920638249325Mouse
12904940Edlmmq5_mextensor digitorum longus muscle mass QTL 5 (mouse)61961634653616346Mouse
15039372Nmrs22_mNAFLD-associated magnetic resonance shift 22 (mouse)6147633435476334Mouse
12904943Tammq4_mtibialis anterior muscle mass QTL 4 (mouse)61961634653616346Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268571299759Mouse
1302051Sluc7_msusceptibility to lung cancer 7 (mouse)Not determined6929707443297168Mouse
14700690Ccs6_mcolon cancer susceptibility 6 (mouse)62377693457776934Mouse
27226726Tibmd7_mtibia midshaft diameter 7, 16 week (mouse)61769999953476985Mouse
12904952Gmmq4_mgastrocnemius muscle mass QTL 4 (mouse)61961634653616346Mouse
1357481Aaj2_manxiety in A/J 2 (mouse)Not determined6450382348703611Mouse
1301998Bts2_mbladder tumor susceptibility 2 (mouse)Not determined61275122146751333Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62499999979976983Mouse

Markers in Region
UniSTS:488727  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381774,329,338 - 74,329,923UniSTSGRCm38
MGSCv371774,728,678 - 74,729,263UniSTSGRCm37
Celera1778,624,130 - 78,624,715UniSTS
Cytogenetic Map6A3UniSTS
Cytogenetic Map17E2UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000004396   ⟹   ENSMUSP00000004396
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl629,467,717 - 29,470,511 (+)Ensembl
GRCm38.p6 Ensembl629,467,718 - 29,470,512 (+)Ensembl
Ensembl Acc Id: ENSMUST00000143101   ⟹   ENSMUSP00000116986
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl629,468,067 - 29,470,511 (+)Ensembl
GRCm38.p6 Ensembl629,468,068 - 29,470,512 (+)Ensembl
Ensembl Acc Id: ENSMUST00000149646   ⟹   ENSMUSP00000145062
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl629,468,067 - 29,470,511 (+)Ensembl
GRCm38.p6 Ensembl629,468,068 - 29,470,512 (+)Ensembl
RefSeq Acc Id: NM_025381   ⟹   NP_079657
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39629,467,782 - 29,470,508 (+)NCBI
GRCm38629,467,783 - 29,470,509 (+)NCBI
MGSCv37629,417,783 - 29,420,509 (+)RGD
Celera629,475,661 - 29,478,387 (+)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_079657   ⟸   NM_025381
- UniProtKB: Q3U6X0 (UniProtKB/Swiss-Prot),   Q9D1K2 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000116986   ⟸   ENSMUST00000143101
Ensembl Acc Id: ENSMUSP00000145062   ⟸   ENSMUST00000149646
Ensembl Acc Id: ENSMUSP00000004396   ⟸   ENSMUST00000004396

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D1K2-F1-model_v2 AlphaFold Q9D1K2 1-119 view protein structure

Promoters
RGD ID:6838971
Promoter ID:MM_KWN:45375
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000057694,   OTTMUST00000057695,   OTTMUST00000057696
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36629,417,626 - 29,418,197 (+)MPROMDB
RGD ID:6889186
Promoter ID:EPDNEW_M8044
Type:initiation region
Name:Atp6v1f_1
Description:Mus musculus ATPase, H+ transporting, lysosomal V1 subunit F, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38629,467,781 - 29,467,841EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913394 AgrOrtholog
Ensembl Genes ENSMUSG00000004285 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000004396 ENTREZGENE
  ENSMUST00000004396.13 UniProtKB/Swiss-Prot
  ENSMUST00000143101.4 UniProtKB/TrEMBL
  ENSMUST00000149646.3 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10580 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ATPase_V1-cplx_f_g_su UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_V1-cplx_fsu_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_V1_fsu_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:66144 UniProtKB/Swiss-Prot
MGD MGI:1913394 ENTREZGENE
NCBI Gene 66144 ENTREZGENE
PANTHER V-TYPE PROTON ATPASE SUBUNIT F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VACUOLAR ATP SYNTHASE SUBUNIT F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ATP-synt_F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Atp6v1f PhenoGen
PIRSF ATPase_V1_F_euk UniProtKB/Swiss-Prot
Superfamily-SCOP SSF159468 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0N4SVE1_MOUSE UniProtKB/TrEMBL
  F7B2B4_MOUSE UniProtKB/TrEMBL
  Q3U6X0 ENTREZGENE
  Q9D1K2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3U6X0 UniProtKB/Swiss-Prot