Vps13a (vacuolar protein sorting 13 homolog A) - Rat Genome Database

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Gene: Vps13a (vacuolar protein sorting 13 homolog A) Rattus norvegicus
Analyze
Symbol: Vps13a
Name: vacuolar protein sorting 13 homolog A
RGD ID: 1311340
Description: Predicted to be involved in lysosomal protein catabolic process. Predicted to act upstream of or within several processes, including flagellated sperm motility; social behavior; and sperm mitochondrion organization. Predicted to be located in several cellular components, including bounding membrane of organelle; neuronal dense core vesicle lumen; and sperm midpiece. Predicted to be extrinsic component of membrane. Human ortholog(s) of this gene implicated in choreaacanthocytosis and choreatic disease. Orthologous to human VPS13A (vacuolar protein sorting 13 homolog A); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chorein; LOC309243; LOC361737; RGD1311340; similar to chorein isoform B; vacuolar protein sorting 13 homolog A (S. cerevisiae); vacuolar protein sorting 13A; vacuolar protein sorting 13A (yeast); vacuolar protein sorting-associated protein 13A
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
mRatBN7.21213,901,999 - 214,128,638 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1213,901,999 - 214,128,555 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,230,525 - 222,462,915 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01229,165,841 - 229,392,426 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01221,985,083 - 222,217,463 (-)NCBIRnor_WKY
Rnor_6.01235,352,513 - 235,813,597 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1235,653,121 - 235,813,030 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01242,670,357 - 243,128,666 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41219,987,826 - 220,221,494 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11220,153,337 - 220,385,366 (-)NCBI
Celera1211,235,485 - 211,455,239 (-)NCBICelera
Cytogenetic Map1q43-q51NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. A conserved sorting-associated protein is mutant in chorea-acanthocytosis. Rampoldi L, etal., Nat Genet. 2001 Jun;28(2):119-20.
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:15686477   PMID:21873635   PMID:22366033   PMID:25996471   PMID:29928881   PMID:30709847   PMID:30741634  


Genomics

Comparative Map Data
Vps13a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21213,901,999 - 214,128,638 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1213,901,999 - 214,128,555 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1222,230,525 - 222,462,915 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01229,165,841 - 229,392,426 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01221,985,083 - 222,217,463 (-)NCBIRnor_WKY
Rnor_6.01235,352,513 - 235,813,597 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1235,653,121 - 235,813,030 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01242,670,357 - 243,128,666 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41219,987,826 - 220,221,494 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11220,153,337 - 220,385,366 (-)NCBI
Celera1211,235,485 - 211,455,239 (-)NCBICelera
Cytogenetic Map1q43-q51NCBI
VPS13A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38977,177,534 - 77,421,537 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl977,177,445 - 77,421,537 (+)EnsemblGRCh38hg38GRCh38
GRCh37979,792,450 - 80,036,453 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36978,982,181 - 79,222,219 (+)NCBINCBI36Build 36hg18NCBI36
Celera950,369,484 - 50,609,533 (+)NCBICelera
Cytogenetic Map9q21.2NCBI
HuRef949,623,817 - 49,863,840 (+)NCBIHuRef
CHM1_1979,938,844 - 80,179,199 (+)NCBICHM1_1
T2T-CHM13v2.0989,334,100 - 89,578,104 (+)NCBIT2T-CHM13v2.0
Vps13a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391916,592,730 - 16,758,433 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1916,592,730 - 16,758,297 (-)EnsemblGRCm39 Ensembl
GRCm381916,615,366 - 16,781,071 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1916,615,366 - 16,780,933 (-)EnsemblGRCm38mm10GRCm38
MGSCv371916,691,164 - 16,855,417 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361916,683,693 - 16,847,946 (-)NCBIMGSCv36mm8
Celera1917,275,535 - 17,440,000 (-)NCBICelera
Cytogenetic Map19A- BNCBI
Vps13a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555122,039,115 - 2,267,099 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555122,037,803 - 2,267,197 (-)NCBIChiLan1.0ChiLan1.0
VPS13A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1976,032,292 - 76,275,155 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl976,032,286 - 76,269,636 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0947,424,921 - 47,668,150 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
VPS13A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1181,191,125 - 81,426,337 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl181,192,349 - 81,426,322 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha181,654,790 - 81,889,759 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0181,603,680 - 81,839,234 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl181,604,885 - 81,839,239 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1181,389,076 - 81,624,112 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0181,110,788 - 81,346,344 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0181,839,940 - 82,075,231 (-)NCBIUU_Cfam_GSD_1.0
Vps13a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947128,315,230 - 128,566,983 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493650312,606,019 - 12,857,807 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS13A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1230,069,368 - 230,331,200 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11230,069,339 - 230,331,343 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21256,783,098 - 256,879,557 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS13A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11288,140,842 - 88,380,966 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1288,167,258 - 88,379,614 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603876,526,493 - 76,716,430 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps13a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248114,640,090 - 4,901,510 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248114,639,926 - 4,902,749 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vps13a
1133 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:73
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000014800
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169537671214537671Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1169537671214537671Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1171310381216310381Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1171629477216629477Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1171629477216629477Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1171629477216629477Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1171629477216629477Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1171629477216629477Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1171629477216629477Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1172609619217609619Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1173108781218108781Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1174133260219133260Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1176550523221550523Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1176869060221869060Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1178784622223784622Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1178810256240830002Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1180359209218108781Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1181133855226133855Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1181759564214537555Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1181829673224569684Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1182623426219932796Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1184550676229550676Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1185145134221264292Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1185356336231689108Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1188377360224054420Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1191033875236033875Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1193113876238113876Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1193422268214537671Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1196248093241248093Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1196248093241248093Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1197670404242670404Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1197697768238755659Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1197814409242814409Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1197814409242814409Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1198211513225126682Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1199368955224569684Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1203995416244113296Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1206329708222745518Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1207702246228581766Rat
1358916Kidm22Kidney mass QTL 223.32kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210702053240947965Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
2292216Bw80Body weight QTL 803.230.0019body mass (VT:0001259)body weight (CMO:0000012)1213533809243914901Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1213707201252085212Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat

Markers in Region
D1Got207  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21214,072,102 - 214,072,315 (+)MAPPERmRatBN7.2
Rnor_6.01235,758,150 - 235,758,362NCBIRnor6.0
Rnor_5.01243,071,107 - 243,071,319UniSTSRnor5.0
RGSC_v3.41220,161,832 - 220,162,045RGDRGSC3.4
RGSC_v3.41220,161,833 - 220,162,045UniSTSRGSC3.4
RGSC_v3.11220,325,855 - 220,326,068RGD
Celera1211,405,264 - 211,405,466UniSTS
RH 2.0 Map11174.7RGD
Cytogenetic Map1q43UniSTS
D1Got218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21214,072,046 - 214,072,306 (+)MAPPERmRatBN7.2
Rnor_6.01235,758,094 - 235,758,353NCBIRnor6.0
Rnor_5.01243,071,051 - 243,071,310UniSTSRnor5.0
RGSC_v3.41220,161,776 - 220,162,036RGDRGSC3.4
RGSC_v3.41220,161,777 - 220,162,036UniSTSRGSC3.4
RGSC_v3.11220,325,799 - 220,326,059RGD
Celera1211,405,208 - 211,405,457UniSTS
RH 2.0 Map11174.9RGD
Cytogenetic Map1q43UniSTS
D1Got216  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21215,510,738 - 215,510,986 (-)MAPPERmRatBN7.2
Rnor_6.01235,520,066 - 235,520,313NCBIRnor6.0
Rnor_5.01242,834,382 - 242,834,629UniSTSRnor5.0
RGSC_v3.41221,680,328 - 221,680,576RGDRGSC3.4
RGSC_v3.41221,680,329 - 221,680,576UniSTSRGSC3.4
RGSC_v3.11221,844,352 - 221,844,599RGD
Celera1212,820,570 - 212,820,817UniSTS
RH 3.4 Map9758.1RGD
RH 3.4 Map9758.1UniSTS
Cytogenetic Map1q43UniSTS
RH127917  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21213,923,813 - 213,924,002 (+)MAPPERmRatBN7.2
Rnor_6.01235,372,683 - 235,372,871NCBIRnor6.0
Rnor_5.01242,690,527 - 242,690,715UniSTSRnor5.0
RGSC_v3.41220,009,645 - 220,009,833UniSTSRGSC3.4
Celera1211,257,292 - 211,257,480UniSTS
RH 3.4 Map11619.92UniSTS
Cytogenetic Map1q43UniSTS
RH128324  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21213,902,062 - 213,902,251 (+)MAPPERmRatBN7.2
Rnor_6.01235,352,577 - 235,352,765NCBIRnor6.0
Rnor_5.01242,670,421 - 242,670,609UniSTSRnor5.0
RGSC_v3.41219,987,890 - 219,988,078UniSTSRGSC3.4
Celera1211,235,549 - 211,235,737UniSTS
Cytogenetic Map1q43UniSTS


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 10 24 8 16 8 8 8 55 16 21 8 8
Low 3 32 33 33 3 33 2 19 19 20 3
Below cutoff 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014800   ⟹   ENSRNOP00000014800
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1213,963,334 - 214,128,404 (-)Ensembl
Rnor_6.0 Ensembl1235,653,121 - 235,813,030 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098661   ⟹   ENSRNOP00000077688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1213,902,861 - 214,128,555 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102736   ⟹   ENSRNOP00000085879
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1213,901,999 - 214,128,555 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112707   ⟹   ENSRNOP00000082655
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1213,925,991 - 214,128,555 (-)Ensembl
RefSeq Acc Id: NM_001100975   ⟹   NP_001094445
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21213,901,999 - 214,128,555 (-)NCBI
Rnor_6.01235,352,513 - 235,813,181 (-)NCBI
Rnor_5.01242,670,357 - 243,128,666 (-)NCBI
RGSC_v3.41219,987,826 - 220,221,494 (-)RGD
Celera1211,235,485 - 211,455,239 (-)RGD
Sequence:
RefSeq Acc Id: XM_039079911   ⟹   XP_038935839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21213,923,553 - 214,128,633 (-)NCBI
RefSeq Acc Id: XM_039079914   ⟹   XP_038935842
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21213,923,553 - 214,128,633 (-)NCBI
RefSeq Acc Id: XM_039079915   ⟹   XP_038935843
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21213,902,312 - 214,063,893 (-)NCBI
RefSeq Acc Id: XM_039079920   ⟹   XP_038935848
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21213,971,088 - 214,128,638 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001094445   ⟸   NM_001100975
- Sequence:
RefSeq Acc Id: ENSRNOP00000014800   ⟸   ENSRNOT00000014800
RefSeq Acc Id: XP_038935843   ⟸   XM_039079915
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935839   ⟸   XM_039079911
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038935842   ⟸   XM_039079914
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038935848   ⟸   XM_039079920
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000082655   ⟸   ENSRNOT00000112707
RefSeq Acc Id: ENSRNOP00000077688   ⟸   ENSRNOT00000098661
RefSeq Acc Id: ENSRNOP00000085879   ⟸   ENSRNOT00000102736
Protein Domains
ATG_C   Chorein N-terminal   DUF1725   SHR-BD   VPS13   VPS13_C   VPS13_mid_rpt

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A899-F1-model_v2 AlphaFold D4A899 1-2335 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311340 AgrOrtholog
BioCyc Gene G2FUF-56217 BioCyc
Ensembl Genes ENSRNOG00000025539 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000014800 ENTREZGENE
  ENSRNOP00000014800.7 UniProtKB/TrEMBL
  ENSRNOP00000077688 ENTREZGENE
  ENSRNOP00000077688.1 UniProtKB/TrEMBL
  ENSRNOP00000082655.1 UniProtKB/TrEMBL
  ENSRNOP00000085879 ENTREZGENE
  ENSRNOP00000085879.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014800 ENTREZGENE
  ENSRNOT00000014800.8 UniProtKB/TrEMBL
  ENSRNOT00000098661 ENTREZGENE
  ENSRNOT00000098661.1 UniProtKB/TrEMBL
  ENSRNOT00000102736 ENTREZGENE
  ENSRNOT00000102736.1 UniProtKB/TrEMBL
  ENSRNOT00000112707.1 UniProtKB/TrEMBL
InterPro Autophagy-rel_C UniProtKB/TrEMBL
  DUF1725 UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
  VPS13_N UniProtKB/TrEMBL
  VPS13_N2 UniProtKB/TrEMBL
NCBI Gene 309243 ENTREZGENE
PANTHER PTHR16166 UniProtKB/TrEMBL
Pfam ATG_C UniProtKB/TrEMBL
  Chorein_N UniProtKB/TrEMBL
  DUF1725 UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
PhenoGen Vps13a PhenoGen
UniProt A0A8I5ZJJ9_RAT UniProtKB/TrEMBL
  A0A8I5ZVN0_RAT UniProtKB/TrEMBL
  A0A8I6A4A2_RAT UniProtKB/TrEMBL
  D4A899_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-04-19 Vps13a  vacuolar protein sorting 13 homolog A  Vps13a  vacuolar protein sorting 13A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-13 Vps13a  vacuolar protein sorting 13A  Vps13a  vacuolar protein sorting 13 homolog A (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-06-15 Vps13a  vacuolar protein sorting 13 homolog A (S. cerevisiae)  Vps13a_predicted  vacuolar protein sorting 13A (yeast) (predicted)  Data Merged 1643240 APPROVED
2008-09-25 Vps13a  vacuolar protein sorting 13 homolog A (S. cerevisiae)  Vps13a  vacuolar protein sorting 13A (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-27 Vps13a  vacuolar protein sorting 13A (yeast)  RGD1311340_predicted  similar to chorein isoform B; chorein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1311340_predicted  similar to chorein isoform B; chorein (predicted)  LOC309243_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC309243_predicted  similar to chorein isoform B; chorein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Vps13a_predicted  vacuolar protein sorting 13A (yeast) (predicted)      Symbol and Name status set to approved 70820 APPROVED