Atp6v1d (ATPase H+ transporting V1 subunit D)

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Gene: Atp6v1d (ATPase H+ transporting V1 subunit D) Rattus norvegicus

Analyze

Symbol:

Atp6v1d

Name:

ATPase H+ transporting V1 subunit D

RGD ID:

735119

Description:

Predicted to enable proton-transporting ATPase activity, rotational mechanism. Predicted to be involved in cilium assembly; protein localization to cilium; and synaptic vesicle lumen acidification. Is extrinsic component of synaptic vesicle membrane. Orthologous to human ATP6V1D (ATPase H+ transporting V1 subunit D); PARTICIPATES IN oxidative phosphorylation pathway; phagocytosis pathway; rheumatoid arthritis pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 1-nitropropane; 2,4-diaminotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D; ATPase, H+ transporting, lysosomal V1 subunit D; ATPase, H+ transporting, V1 subunit D; V-type proton ATPase subunit D

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	ATP6V1D (ATPase H+ transporting V1 subunit D)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Atp6v1d (ATPase, H+ transporting, lysosomal V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Atp6v1d (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ATP6V1D (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ATP6V1D (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101968194 (V-type proton ATPase subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	ATP6V1D (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	ATP6V1D (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Atp6v1d (ATPase H+ transporting V1 subunit D)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	ATP6V1D (ATPase H+ transporting V1 subunit D)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Mus musculus (house mouse):	Atp6v1d (ATPase, H+ transporting, lysosomal V1 subunit D)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	atp6v1d (ATPase H+ transporting V1 subunit D)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	VMA8	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Vha36-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Vha36-3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	vha-14	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	97,656,725 - 97,672,211 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	97,656,576 - 97,672,303 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	98,086,262 - 98,101,815 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	6	98,385,424 - 98,400,977 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	6	97,772,371 - 97,787,931 (-)	NCBI	Rnor_WKY
Rnor_6.0	6	102,032,271 - 102,047,754 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	102,032,276 - 102,047,758 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	111,407,085 - 111,421,779 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	101,479,417 - 101,494,826 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	101,482,872 - 101,498,282 (-)	NCBI
Celera	6	96,044,738 - 96,060,175 (-)	NCBI		Celera
Cytogenetic Map	6	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Chemical and Drug Induced Liver Injury (ISO)

Experimental Liver Cirrhosis (ISO)

Leber congenital amaurosis 13 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

1-nitropropane (EXP)

17alpha-ethynylestradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4-diaminotoluene (EXP)

2,4-dinitrotoluene (EXP)

2,6-diaminotoluene (EXP)

2,6-dinitrotoluene (EXP)

2-acetamidofluorene (EXP)

2-hydroxypropanoic acid (ISO)

2-methylcholine (ISO)

2-nitro-p-phenylenediamine (EXP)

2-nitrofluorene (EXP)

2-nitropropane (EXP)

3H-1,2-dithiole-3-thione (EXP)

4,4'-diaminodiphenylmethane (EXP)

4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one (EXP)

4-acetylaminofluorene (EXP)

4-nitro-1,2-phenylenediamine (EXP)

acrolein (ISO)

acrylamide (EXP)

aflatoxin B1 (EXP,ISO)

alpha-pinene (ISO)

anthracen-2-amine (EXP)

Aroclor 1254 (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

Brodifacoum (EXP)

cadmium dichloride (ISO)

caffeine (ISO)

captan (ISO)

chloropicrin (ISO)

clofibric acid (EXP)

cocaine (EXP)

copper(II) sulfate (ISO)

CU-O LINKAGE (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

finasteride (EXP)

flutamide (EXP)

folic acid (ISO)

folpet (ISO)

furan (EXP)

gentamycin (EXP)

Heliotrine (EXP)

hydrazine (EXP)

hydrogen peroxide (ISO)

isotretinoin (ISO)

ivermectin (ISO)

methidathion (ISO)

methyl methanesulfonate (ISO)

N-nitrosodiethylamine (EXP)

N-nitrosodimethylamine (EXP)

N-nitrosomorpholine (EXP)

nefazodone (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

perfluorooctanoic acid (EXP)

picoxystrobin (ISO)

pirinixic acid (EXP)

piroxicam (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

rac-lactic acid (ISO)

resveratrol (ISO)

rotenone (ISO)

silicon dioxide (ISO)

sodium dichromate (EXP,ISO)

Soman (EXP)

tamoxifen (ISO)

temozolomide (ISO)

thimerosal (ISO)

thioacetamide (EXP)

trichloroethene (EXP)

trichostatin A (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cilium assembly (ISO)

protein localization to cilium (ISO)

synaptic vesicle lumen acidification (ISO)

Cellular Component

ATPase complex (ISO)

centrosome (ISO)

cilium (ISO)

clathrin-coated vesicle membrane (IEA)

extrinsic component of synaptic vesicle membrane (EXP,IDA,IEP)

membrane (ISO)

proton-transporting V-type ATPase complex (IBA,ISO)

transmembrane transporter complex (ISO)

Molecular Function

protein binding (ISO)

proton-transporting ATPase activity, rotational mechanism (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

oxidative phosphorylation pathway (IEA)

phagocytosis pathway (IEA)

rheumatoid arthritis pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Structure of V-ATPase from the mammalian brain.	Abbas YM, etal., Science. 2020 Mar 13;367(6483):1240-1246. doi: 10.1126/science.aaz2924.
2.	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.
3.	cDNA cloning, chromosomal localization and evolutionary analysis of mouse vacuolar ATPase subunit D, Atp6m.	Kennell JA, etal., Cytogenet Cell Genet 2001;92(3-4):337-41.
4.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:17897319	PMID:18752060	PMID:19056867	PMID:19199708	PMID:21844891	PMID:23376485	PMID:25931508

Genomics

Comparative Map Data

Atp6v1d
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	97,656,725 - 97,672,211 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	97,656,576 - 97,672,303 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	98,086,262 - 98,101,815 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	6	98,385,424 - 98,400,977 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	6	97,772,371 - 97,787,931 (-)	NCBI	Rnor_WKY
Rnor_6.0	6	102,032,271 - 102,047,754 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	102,032,276 - 102,047,758 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	111,407,085 - 111,421,779 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	101,479,417 - 101,494,826 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	101,482,872 - 101,498,282 (-)	NCBI
Celera	6	96,044,738 - 96,060,175 (-)	NCBI		Celera
Cytogenetic Map	6	q24	NCBI

ATP6V1D
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	67,337,872 - 67,359,804 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	14	67,294,371 - 67,360,265 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	67,804,589 - 67,826,521 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	66,874,342 - 66,896,344 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	66,874,342 - 66,896,344	NCBI
Celera	14	47,863,642 - 47,885,645 (-)	NCBI		Celera
Cytogenetic Map	14	q23.3	NCBI
HuRef	14	47,974,504 - 47,996,644 (-)	NCBI		HuRef
CHM1_1	14	67,743,271 - 67,765,404 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	61,544,996 - 61,566,929 (-)	NCBI		T2T-CHM13v2.0

Atp6v1d
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	78,889,756 - 78,908,810 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	78,887,499 - 78,908,412 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	78,842,982 - 78,862,008 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	78,840,725 - 78,861,638 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	79,943,969 - 79,962,625 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	79,761,822 - 79,780,478 (-)	NCBI		MGSCv36	mm8
Celera	12	80,307,557 - 80,326,098 (-)	NCBI		Celera
Cytogenetic Map	12	C3	NCBI
cM Map	12	35.51	NCBI

Atp6v1d
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955466	2,854,889 - 2,869,950 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955466	2,855,597 - 2,869,319 (+)	NCBI	ChiLan1.0	ChiLan1.0

ATP6V1D
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	14	66,792,168 - 66,813,714 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	14	47,913,254 - 47,935,376 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

ATP6V1D
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	41,332,581 - 41,354,058 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	41,333,021 - 41,354,320 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	41,024,328 - 41,045,781 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	41,559,923 - 41,581,418 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	41,559,926 - 41,581,376 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	41,178,800 - 41,200,277 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	41,252,376 - 41,273,861 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	41,611,332 - 41,632,798 (-)	NCBI		UU_Cfam_GSD_1.0

LOC101968194
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	89,779,360 - 89,854,240 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936478	8,991,091 - 9,065,865 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ATP6V1D
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	91,064,396 - 91,084,913 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	91,065,998 - 91,084,908 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	97,375,524 - 97,394,503 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ATP6V1D
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	24	44,578,057 - 44,598,918 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	44,578,807 - 44,598,394 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666053	32,808,011 - 32,828,557 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Atp6v1d
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624734	33,640,839 - 33,657,745 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	33,640,842 - 33,669,471 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Atp6v1d
38 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	58
Count of miRNA genes:	51
Interacting mature miRNAs:	57
Transcripts:	ENSRNOT00000012101
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	10894415	110548006	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	15107216	107351382	Rat
634330	Pia16	Pristane induced arthritis QTL 16	3.9		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	6	45790088	104200226	Rat
6893332	Cm74	Cardiac mass QTL 74	0.4	0.64	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	6	57730540	104085867	Rat
1558641	Cm47	Cardiac mass QTL 47	2.9	0.001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	6	57730540	104085867	Rat
70176	Mcsm1	Mammary carcinoma susceptibility modifier QTL 1			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	58632962	103632962	Rat
12801471	Schws9	Schwannoma susceptibility QTL 9			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	61747639	106747639	Rat
731173	Uae22	Urinary albumin excretion QTL 22	10.1		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	65531555	140994061	Rat
2290393	Uae37	Urinary albumin excretion QTL 37		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	65531555	140994061	Rat
1641904	Alcrsp4	Alcohol response QTL 4			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	6	67262953	112262953	Rat
1300075	Glom7	Glomerulus QTL 7	5.6	0.0000002	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	6	71201409	116201409	Rat
1331789	Rf37	Renal function QTL 37	3.224		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	6	72202632	115200186	Rat
70196	BpQTLcluster7	Blood pressure QTL cluster 7	6.82		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	72202632	117202632	Rat
724536	Uae7	Urinary albumin excretion QTL 7	3.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	72202632	130729475	Rat
1331799	Bp211	Blood pressure QTL 211	3.66407		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	72202632	130919985	Rat
1581550	Pur8	Proteinuria QTL 8			urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	6	72227641	130729205	Rat
1581563	Uae33	Urinary albumin excretion QTL 33			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	72227641	130729205	Rat
724524	Uae2	Urinary albumin excretion QTL 2	2.7	0.0005	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	73463459	109394713	Rat
2293837	Kiddil1	Kidney dilation QTL 1	3.7		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	81132889	104393926	Rat
2293842	Kiddil3	Kidney dilation QTL 3	4.3		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	81132889	104393926	Rat
737827	Hcar11	Hepatocarcinoma resistance QTL 11	4.4		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	6	82523650	110548006	Rat
1576302	Schws4	Schwannoma susceptibility QTL 4		0.0078	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	83190345	106747639	Rat
738034	Anxrr5	Anxiety related response QTL 5	5.9		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	6	84130881	129130881	Rat
10054138	Gmadr3	Adrenal mass QTL 3	3.68	0.00045	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	6	85140138	130140138	Rat
10054123	Srcrt6	Stress Responsive Cort QTL 6	2.5	0.0043	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	85140138	130140138	Rat
724513	Uae14	Urinary albumin excretion QTL 14	6.5		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	85311061	133478515	Rat
1300076	Glom8	Glomerulus QTL 8	7	0.000000009	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)	6	86894788	131894788	Rat
2303624	Vencon5	Ventilatory control QTL 5	4.45		respiration trait (VT:0001943)	minute ventilation (CMO:0000132)	6	88047916	133047916	Rat
1331722	Thshl1	Thyroid stimulating hormone level QTL 1	11.7	0.0001	blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	6	89762877	106752806	Rat
1331725	Bp212	Blood pressure QTL 212	3.52475		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	93701310	128713626	Rat
61414	Pia3	Pristane induced arthritis QTL 3	4.5		joint integrity trait (VT:0010548)	post-insult time to onset of experimental arthritis (CMO:0001450)	6	94968928	137848904	Rat
12801411	Schws8	Schwannoma susceptibility QTL 8			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	94968928	139968928	Rat
8552796	Vie3	Viral induced encephalitis QTL 3	2.6		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	6	96833997	140994061	Rat

Markers in Region

RH134082

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	97,662,888 - 97,663,095 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	102,038,435 - 102,038,641	NCBI	Rnor6.0
Rnor_5.0	6	111,413,249 - 111,413,455	UniSTS	Rnor5.0
RGSC_v3.4	6	101,485,581 - 101,485,787	UniSTS	RGSC3.4
Celera	6	96,050,902 - 96,051,108	UniSTS
RH 3.4 Map	6	690.1	UniSTS
Cytogenetic Map	6	q24	UniSTS

RH141312

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	97,656,830 - 97,657,033 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	102,032,377 - 102,032,579	NCBI	Rnor6.0
Rnor_5.0	6	111,407,191 - 111,407,393	UniSTS	Rnor5.0
RGSC_v3.4	6	101,479,523 - 101,479,725	UniSTS	RGSC3.4
Celera	6	96,044,844 - 96,045,046	UniSTS
RH 3.4 Map	6	691.7	UniSTS
Cytogenetic Map	6	q24	UniSTS

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

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_199386	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC120917	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC063177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213312	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214434	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ216046	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000164	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000012101 ⟹ ENSRNOP00000012101

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	97,656,722 - 97,672,231 (-)	Ensembl
Rnor_6.0 Ensembl	6	102,032,276 - 102,047,758 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000093857 ⟹ ENSRNOP00000083754

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	97,658,665 - 97,672,303 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000103277 ⟹ ENSRNOP00000084384

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	97,656,576 - 97,672,234 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000116517 ⟹ ENSRNOP00000092525

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	97,657,200 - 97,668,388 (-)	Ensembl

RefSeq Acc Id:

NM_199386 ⟹ NP_955418

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	6	97,656,725 - 97,672,211 (-)	NCBI
Rnor_6.0	6	102,032,271 - 102,047,754 (-)	NCBI
Rnor_5.0	6	111,407,085 - 111,421,779 (-)	NCBI
RGSC_v3.4	6	101,479,417 - 101,494,826 (-)	RGD
Celera	6	96,044,738 - 96,060,175 (-)	RGD

Sequence:

show sequence

GGCTCTGTGGTAACAGTTCTGGAGGTGTTGCGGTCCCGATTGTCCCACTGGGGACCCGAGCCGA
GTCACCGTCAGAATGTCGGGCAAAGACCGGATTGAAATCTTCCCTTCGCGAATGGCACAGACCA
TCATGAAGGCTCGGTTAAAAGGAGCACAGACTGGTCGAAACCTCCTGAAGAAAAAGTCTGATGC
CTTAACTCTTCGATTTCGACAGATCCTGAAGAAGATAATAGAGACTAAGATGCTGATGGGTGAG
GTGATGAGAGAAGCTGCCTTCTCATTGGCTGAGGCCAAATTCACAGCAGGGGACTTCAGCACCA
CAGTTATACAAAATGTAAATAAAGCCCAGGTGAAGATCCGAGCAAAGAAAGACAATGTAGCAGG
TGTCACCTTACCAGTGTTTGAACATTACCACGAAGGAACTGACAGCTATGAACTAACCGGTTTA
GCCAGAGGTGGGGAGCAGCTGGCGAAACTTAAGCGGAATTATGCCAAAGCAGTGGAACTACTGG
TGGAACTGGCTTCCCTGCAGACTTCCTTTGTTACTCTGGATGAAGCCATTAAGATAACCAACAG
GCGTGTAAATGCTATTGAGCATGTCATCATTCCCCGGATTGAACGCACCCTTGCTTATATCATC
ACAGAACTGGATGAGAGAGAGCGAGAAGAATTCTATAGGTTAAAGAAAATCCAGGAGAAGAAAA
AGATTATCAAGGAGAAAAGCGAGAAGGACTTGGAGCGGCGGAGAGCAGCTGGAGAGGTGATGGA
GCCCGCCAACCTCCTGGCGGAAGAGAAGGACGAGGACCTGCTGTTCGAGTAGCTGCCCGCTGCT
CCCTTCAGGCTGAGCATCATTTAACTCAGTGTGCAGGTTCGGTATGTGCGGGTATTTATTTTGG
CAGAAGAGTTCATCTGGCTGTAAGATTTATCAGAATGCTGTGTGAGACCATTTTTCCTGCATCA
TAATTCAGCAACCTGAGATTTGTAAAACCCACCCAGCACTTACAGAATCTCCCCAGTGAAAGAG
TCATACCATCCTATTTACACTAGTTTGACTGATGTGTTTAAAACTTTAGGAAATACTTACTATA
AACATTCATGGTCTCAGGCAAATGCTGAGCAGCCTTCCTTCCTACCCACTTGTAAACCTTGGCA
CTGTTGTCTGAGGCTGTGCAGCCATTGTGTTACTGTGGACTCAACTCTATGCCTACTTTTCTTT
GCACGATGTGTCTGTGTGTAATGGAAGTGGTTCTGCCCATTTAAATATGACTTATGAACAGAGT
AAAATGATTTAAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_955418	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH63177	(Get FASTA)	NCBI Sequence Viewer
	EDM03701	(Get FASTA)	NCBI Sequence Viewer
	EDM03702	(Get FASTA)	NCBI Sequence Viewer
	EDM03703	(Get FASTA)	NCBI Sequence Viewer
	EDM03704	(Get FASTA)	NCBI Sequence Viewer
	EDM03705	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_955418 ⟸ NM_199386

- UniProtKB:

Q6P503 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSGKDRIEIFPSRMAQTIMKARLKGAQTGRNLLKKKSDALTLRFRQILKKIIETKMLMGEVMRE
AAFSLAEAKFTAGDFSTTVIQNVNKAQVKIRAKKDNVAGVTLPVFEHYHEGTDSYELTGLARGG
EQLAKLKRNYAKAVELLVELASLQTSFVTLDEAIKITNRRVNAIEHVIIPRIERTLAYIITELD
EREREEFYRLKKIQEKKKIIKEKSEKDLERRRAAGEVMEPANLLAEEKDEDLLFE

hide sequence

RefSeq Acc Id:

ENSRNOP00000012101 ⟸ ENSRNOT00000012101

RefSeq Acc Id:

ENSRNOP00000084384 ⟸ ENSRNOT00000103277

RefSeq Acc Id:

ENSRNOP00000083754 ⟸ ENSRNOT00000093857

RefSeq Acc Id:

ENSRNOP00000092525 ⟸ ENSRNOT00000116517

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6P503-F1-model_v2	AlphaFold	Q6P503	1-247	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694687

Promoter ID:

EPDNEW_R5212

Type:

initiation region

Name:

Atp6v1d_1

Description:

ATPase H+ transporting V1 subunit D

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	6	102,047,770 - 102,047,830	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:735119	AgrOrtholog
BioCyc Gene	G2FUF-36987	BioCyc
BioCyc Pathway	PWY-7980 [ATP biosynthesis]	BioCyc
Ensembl Genes	ENSRNOG00000009080	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000012101.5	UniProtKB/TrEMBL
	ENSRNOP00000083754.1	UniProtKB/TrEMBL
	ENSRNOP00000084384	ENTREZGENE
	ENSRNOP00000084384.1	UniProtKB/TrEMBL
	ENSRNOP00000092525.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000012101.7	UniProtKB/TrEMBL
	ENSRNOT00000093857.1	UniProtKB/TrEMBL
	ENSRNOT00000103277	ENTREZGENE
	ENSRNOT00000103277.1	UniProtKB/TrEMBL
	ENSRNOT00000116517.1	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:6891415	IMAGE-MGC_LOAD
InterPro	ATPase_V1/A1-cplx_dsu	UniProtKB/TrEMBL
KEGG Report	rno:299159	UniProtKB/TrEMBL
MGC_CLONE	MGC:72940	IMAGE-MGC_LOAD
NCBI Gene	299159	ENTREZGENE
PANTHER	ATPase_V1/A1_D	UniProtKB/TrEMBL
Pfam	ATP-synt_D	UniProtKB/TrEMBL
PhenoGen	Atp6v1d	PhenoGen
TIGRFAMs	V_ATPase_subD	UniProtKB/TrEMBL
UniProt	A0A8I5ZXM1_RAT	UniProtKB/TrEMBL
	A0A8I6AHT1_RAT	UniProtKB/TrEMBL
	F7EUL0_RAT	UniProtKB/TrEMBL
	Q6P503	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-25	Atp6v1d	ATPase H+ transporting V1 subunit D	Atp6v1d	ATPase, H+ transporting, lysosomal V1 subunit D	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-03	Atp6v1d	ATPase, H+ transporting, lysosomal V1 subunit D	Atp6v1d	ATPase, H+ transporting, V1 subunit D	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-07-08	Atp6v1d	ATPase, H+ transporting, V1 subunit D		ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D	Name updated	1299863	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)