Atp6v0d1 (ATPase H+ transporting V0 subunit D1) - Rat Genome Database

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Gene: Atp6v0d1 (ATPase H+ transporting V0 subunit D1) Rattus norvegicus
Analyze
Symbol: Atp6v0d1
Name: ATPase H+ transporting V0 subunit D1
RGD ID: 1306159
Description: Predicted to contribute to proton-transporting ATPase activity, rotational mechanism. Involved in brain development. Located in apical plasma membrane; axon terminus; and synaptic vesicle. Part of protein-containing complex. Orthologous to human ATP6V0D1 (ATPase H+ transporting V0 subunit d1); PARTICIPATES IN oxidative phosphorylation pathway; phagocytosis pathway; rheumatoid arthritis pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Ac39; ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d1; ATPase, H+ transporting, lysosomal V0 subunit D1; ATPase, H+ transporting, V0 subunit D; ATPase, H+ transporting, V0 subunit D isoform 1; LOC291969; physophilin; V-type proton ATPase subunit d 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21933,403,352 - 33,447,357 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1933,403,355 - 33,447,450 (-)Ensembl
Rnor_6.01937,481,782 - 37,525,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1937,481,782 - 37,525,762 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01948,347,540 - 48,391,661 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41935,342,041 - 35,386,025 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11935,346,923 - 35,390,906 (-)NCBI
Celera1932,831,706 - 32,875,649 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17alpha-ethynylestradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
acetylsalicylic acid  (ISO)
aconitine  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
azoxystrobin  (EXP)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (EXP)
clofibrate  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
gentamycin  (EXP)
glycochenodeoxycholic acid  (ISO)
glyphosate  (EXP)
imidacloprid  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
N-acetyl-L-cysteine  (ISO)
ozone  (ISO)
rifampicin  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
thiabendazole  (EXP)
thioacetamide  (EXP)
trichostatin A  (ISO)
Triptolide  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
Yessotoxin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Brain Ac39/physophilin: cloning, coexpression and colocalization with synaptophysin. Carrion-Vazquez M, etal., Eur J Neurosci. 1998 Mar;10(3):1153-66.
2. The V0 sector of the V-ATPase, synaptobrevin, and synaptophysin are associated on synaptic vesicles in a Triton X-100-resistant, freeze-thawing sensitive, complex. Galli T, etal., J Biol Chem. 1996 Jan 26;271(4):2193-8.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Distinct expression patterns of different subunit isoforms of the V-ATPase in the rat epididymis. Pietrement C, etal., Biol Reprod. 2006 Jan;74(1):185-94. Epub 2005 Sep 28.
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Purification of the synaptic vesicle-binding protein physophilin. Identification as 39-kDa subunit of the vacuolar H(+)-ATPase. Siebert A, etal., J Biol Chem. 1994 Nov 11;269(45):28329-34.
Additional References at PubMed
PMID:9670047   PMID:12477932   PMID:12527205   PMID:17897319   PMID:18752060   PMID:19056867   PMID:19199708   PMID:21844891   PMID:23376485   PMID:23533145   PMID:25002582   PMID:28296633  


Genomics

Comparative Map Data
Atp6v0d1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21933,403,352 - 33,447,357 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1933,403,355 - 33,447,450 (-)Ensembl
Rnor_6.01937,481,782 - 37,525,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1937,481,782 - 37,525,762 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01948,347,540 - 48,391,661 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41935,342,041 - 35,386,025 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11935,346,923 - 35,390,906 (-)NCBI
Celera1932,831,706 - 32,875,649 (-)NCBICelera
Cytogenetic Map19q12NCBI
ATP6V0D1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381667,438,019 - 67,481,157 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1667,438,014 - 67,481,181 (-)EnsemblGRCh38hg38GRCh38
GRCh371667,471,922 - 67,515,060 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361666,029,418 - 66,072,590 (-)NCBINCBI36hg18NCBI36
Build 341666,029,425 - 66,072,589NCBI
Celera1651,980,121 - 52,023,291 (-)NCBI
Cytogenetic Map16q22.1NCBI
HuRef1653,345,066 - 53,388,217 (-)NCBIHuRef
CHM1_11668,879,298 - 68,922,471 (-)NCBICHM1_1
T2T-CHM13v2.01673,232,795 - 73,275,929 (-)NCBI
Atp6v0d1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398106,251,093 - 106,292,696 (-)NCBIGRCm39mm39
GRCm39 Ensembl8106,251,097 - 106,292,679 (-)Ensembl
GRCm388105,524,461 - 105,566,064 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8105,524,465 - 105,566,047 (-)EnsemblGRCm38mm10GRCm38
MGSCv378108,048,370 - 108,089,940 (-)NCBIGRCm37mm9NCBIm37
MGSCv368108,413,599 - 108,455,169 (-)NCBImm8
Celera8109,747,720 - 109,789,272 (-)NCBICelera
Cytogenetic Map8D3NCBI
Atp6v0d1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554849,167,439 - 9,206,193 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554849,167,439 - 9,206,193 (+)NCBIChiLan1.0ChiLan1.0
ATP6V0D1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11667,171,883 - 67,214,670 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1667,171,883 - 67,214,670 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01647,783,327 - 47,826,138 (-)NCBIMhudiblu_PPA_v0panPan3
ATP6V0D1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1581,926,589 - 81,965,959 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl581,926,612 - 81,965,526 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha581,916,255 - 81,955,624 (+)NCBI
ROS_Cfam_1.0582,361,885 - 82,401,257 (+)NCBI
ROS_Cfam_1.0 Ensembl582,361,853 - 82,401,254 (+)Ensembl
UMICH_Zoey_3.1582,188,035 - 82,227,401 (+)NCBI
UNSW_CanFamBas_1.0581,869,135 - 81,908,503 (+)NCBI
UU_Cfam_GSD_1.0582,512,585 - 82,551,949 (+)NCBI
Atp6v0d1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934941,661,672 - 41,700,328 (+)NCBI
SpeTri2.0NW_00493647517,888,788 - 17,927,513 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP6V0D1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl628,090,183 - 28,131,985 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1628,090,180 - 28,132,080 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2625,357,269 - 25,399,102 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATP6V0D1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1559,976,118 - 60,018,414 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl560,002,544 - 60,017,894 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604722,725,086 - 22,767,799 (+)NCBIVero_WHO_p1.0
Atp6v0d1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474618,828,024 - 18,883,128 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462474618,828,025 - 18,883,128 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH94762  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21933,448,678 - 33,448,781 (+)MAPPERmRatBN7.2
Rnor_6.01937,527,106 - 37,527,208NCBIRnor6.0
Rnor_5.01948,393,005 - 48,393,107UniSTSRnor5.0
RGSC_v3.41935,387,369 - 35,387,471UniSTSRGSC3.4
Celera1932,877,022 - 32,877,124UniSTS
Cytogenetic Map19q11UniSTS
Atp6e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21933,403,466 - 33,403,638 (+)MAPPERmRatBN7.2
Rnor_6.01937,481,894 - 37,482,065NCBIRnor6.0
Rnor_5.01948,347,652 - 48,347,823UniSTSRnor5.0
RGSC_v3.41935,342,153 - 35,342,324UniSTSRGSC3.4
Celera1932,831,818 - 32,831,989UniSTS
Cytogenetic Map19q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)192753020737947399Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)192753020737947399Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)192753020737947399Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:353
Count of miRNA genes:209
Interacting mature miRNAs:238
Transcripts:ENSRNOT00000023606
Prediction methods:Microtar, 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.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023606   ⟹   ENSRNOP00000023606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,403,372 - 33,447,356 (-)Ensembl
Rnor_6.0 Ensembl1937,481,782 - 37,525,762 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092910   ⟹   ENSRNOP00000076059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,403,355 - 33,447,353 (-)Ensembl
Rnor_6.0 Ensembl1937,486,670 - 37,525,733 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1937,487,510 - 37,496,510 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101629   ⟹   ENSRNOP00000093751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,435,408 - 33,447,308 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110132   ⟹   ENSRNOP00000095463
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,403,372 - 33,447,450 (-)Ensembl
RefSeq Acc Id: NM_001011927   ⟹   NP_001011927
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,403,355 - 33,447,335 (-)NCBI
Rnor_6.01937,481,782 - 37,525,762 (-)NCBI
Rnor_5.01948,347,540 - 48,391,661 (-)NCBI
RGSC_v3.41935,342,041 - 35,386,025 (-)RGD
Celera1932,831,706 - 32,875,649 (-)RGD
Sequence:
RefSeq Acc Id: XM_039097616   ⟹   XP_038953544
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,403,352 - 33,447,357 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001011927 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953544 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88462 (Get FASTA)   NCBI Sequence Viewer  
  EDL92381 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001011927   ⟸   NM_001011927
- UniProtKB: Q5M7T6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023606   ⟸   ENSRNOT00000023606
RefSeq Acc Id: ENSRNOP00000076059   ⟸   ENSRNOT00000092910
RefSeq Acc Id: XP_038953544   ⟸   XM_039097616
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000093751   ⟸   ENSRNOT00000101629
RefSeq Acc Id: ENSRNOP00000095463   ⟸   ENSRNOT00000110132

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5M7T6-F1-model_v2 AlphaFold Q5M7T6 1-351 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701102
Promoter ID:EPDNEW_R11603
Type:initiation region
Name:Atp6v0d1_1
Description:ATPase H+ transporting V0 subunit D1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01937,525,756 - 37,525,816EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306159 AgrOrtholog
BioCyc Gene G2FUF-5825 BioCyc
BioCyc Pathway PWY-7980 [ATP biosynthesis] BioCyc
Ensembl Genes ENSRNOG00000017235 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000023606.5 UniProtKB/TrEMBL
  ENSRNOP00000076059.1 UniProtKB/TrEMBL
  ENSRNOP00000093751.1 UniProtKB/TrEMBL
  ENSRNOP00000095463 ENTREZGENE
  ENSRNOP00000095463.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023606.7 UniProtKB/TrEMBL
  ENSRNOT00000092910.2 UniProtKB/TrEMBL
  ENSRNOT00000101629.1 UniProtKB/TrEMBL
  ENSRNOT00000110132 ENTREZGENE
  ENSRNOT00000110132.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.132.50 UniProtKB/TrEMBL
  1.20.1690.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7127604 IMAGE-MGC_LOAD
InterPro ATPase_su_C-like UniProtKB/TrEMBL
  ATPase_V0-cplx_dsu UniProtKB/TrEMBL
  ATPase_V0/A0-cplx_csu/dsu UniProtKB/TrEMBL
  V-type_ATPase_su_c/d_dom_3 UniProtKB/TrEMBL
  V-type_ATPase_suC UniProtKB/TrEMBL
KEGG Report rno:291969 UniProtKB/TrEMBL
MGC_CLONE MGC:95115 IMAGE-MGC_LOAD
NCBI Gene 291969 ENTREZGENE
PANTHER PTHR11028 UniProtKB/TrEMBL
Pfam vATP-synt_AC39 UniProtKB/TrEMBL
PhenoGen Atp6v0d1 PhenoGen
PIRSF V-ATP_synth_D UniProtKB/TrEMBL
Superfamily-SCOP ATPase_V0/A0_c/d UniProtKB/TrEMBL
UniProt A0A1B0GWX7_RAT UniProtKB/TrEMBL
  A0A8I6AMP1_RAT UniProtKB/TrEMBL
  A0A8I6AXG8_RAT UniProtKB/TrEMBL
  F7FFW7_RAT UniProtKB/TrEMBL
  Q5M7T6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-18 Atp6v0d1  ATPase H+ transporting V0 subunit D1  Atp6v0d1  ATPase, H+ transporting, lysosomal V0 subunit D1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-04-27 Atp6v0d1  ATPase, H+ transporting, lysosomal V0 subunit D1  Atp6v0d1  ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Atp6v0d1  ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d1  Atp6v0d1  ATPase, H+ transporting, lysosomal V0 subunit D1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-03 Atp6v0d1  ATPase, H+ transporting, lysosomal V0 subunit D1  Atp6v0d1  ATPase, H+ transporting, V0 subunit D isoform 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Atp6v0d1  ATPase, H+ transporting, V0 subunit D isoform 1  Atp6v0d1_predicted  ATPase, H+ transporting, V0 subunit D isoform 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Atp6v0d1_predicted  ATPase, H+ transporting, V0 subunit D isoform 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED