Vti1a (vesicle transport through interaction with t-SNAREs 1A) - Rat Genome Database

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Gene: Vti1a (vesicle transport through interaction with t-SNAREs 1A) Rattus norvegicus
Analyze
Symbol: Vti1a
Name: vesicle transport through interaction with t-SNAREs 1A
RGD ID: 621490
Description: Predicted to enable SNAP receptor activity and SNARE binding activity. Involved in endoplasmic reticulum to Golgi vesicle-mediated transport; synaptic vesicle to endosome fusion; and vesicle fusion with Golgi apparatus. Located in several cellular components, including clathrin-coated vesicle; neuronal cell body; and perinuclear region of cytoplasm. Part of SNARE complex. Is active in hippocampal mossy fiber to CA3 synapse and synaptic vesicle membrane. Orthologous to human VTI1A (vesicle transport through interaction with t-SNAREs 1A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DD6A4-2(1); SNARE Vti1a-beta protein; vesicle transport through interaction with t-SNAREs homolog 1A; vesicle transport through interaction with t-SNAREs homolog 1A (yeast); vesicle transport v-SNARE protein Vti1-like 2; Vti1; Vti1-pending; vti1-rp2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Vti1a_v1 ; Vti1a_v2
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81264,361,538 - 264,667,171 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1264,361,522 - 264,668,727 (+)EnsemblGRCr8
mRatBN7.21254,356,343 - 254,661,854 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1254,356,429 - 254,661,852 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1262,561,531 - 262,865,459 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01269,267,611 - 269,571,543 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01261,915,213 - 262,220,349 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01276,310,072 - 276,508,635 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1276,309,927 - 276,490,602 (+)Ensemblrn6Rnor6.0
Rnor_5.01283,705,427 - 283,902,980 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41261,664,003 - 261,905,744 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1250,063,252 - 250,364,895 (+)NCBICelera
RGSC_v3.11261,875,047 - 262,116,789 (+)NCBI
Cytogenetic Map1q55NCBI
JBrowse:




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. The SNARE Vti1a-beta is localized to small synaptic vesicles and participates in a novel SNARE complex. Antonin W, etal., J Neurosci 2000 Aug 1;20(15):5724-32.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. The SNAREs vti1a and vti1b have distinct localization and SNARE complex partners. Kreykenbohm V, etal., Eur J Cell Biol 2002 May;81(5):273-80.
5. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Evidence for early endosome-like fusion of recently endocytosed synaptic vesicles. Rizzoli SO, etal., Traffic. 2006 Sep;7(9):1163-76.
11. The identification of a novel endoplasmic reticulum to Golgi SNARE complex used by the prechylomicron transport vesicle. Siddiqi SA, etal., J Biol Chem. 2006 Jul 28;281(30):20974-82. Epub 2006 May 30.
12. Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
Additional References at PubMed
PMID:11101518   PMID:11786915   PMID:15215310   PMID:18195106   PMID:19132534   PMID:19224922   PMID:21803295   PMID:22243751   PMID:22958904   PMID:23677696   PMID:24095276  


Genomics

Comparative Map Data
Vti1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81264,361,538 - 264,667,171 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1264,361,522 - 264,668,727 (+)EnsemblGRCr8
mRatBN7.21254,356,343 - 254,661,854 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1254,356,429 - 254,661,852 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1262,561,531 - 262,865,459 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01269,267,611 - 269,571,543 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01261,915,213 - 262,220,349 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01276,310,072 - 276,508,635 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1276,309,927 - 276,490,602 (+)Ensemblrn6Rnor6.0
Rnor_5.01283,705,427 - 283,902,980 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41261,664,003 - 261,905,744 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1250,063,252 - 250,364,895 (+)NCBICelera
RGSC_v3.11261,875,047 - 262,116,789 (+)NCBI
Cytogenetic Map1q55NCBI
VTI1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810112,446,988 - 112,855,368 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10112,446,998 - 112,818,744 (+)Ensemblhg38GRCh38
GRCh3710114,206,746 - 114,615,127 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3610114,196,746 - 114,568,493 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3410114,197,005 - 114,487,522NCBI
Celera10107,934,279 - 108,306,193 (+)NCBICelera
Cytogenetic Map10q25.2NCBI
HuRef10107,834,405 - 108,205,925 (+)NCBIHuRef
CHM1_110114,488,406 - 114,860,295 (+)NCBICHM1_1
T2T-CHM13v2.010113,337,655 - 113,746,195 (+)NCBIT2T-CHM13v2.0
Vti1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391955,304,489 - 55,615,893 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1955,304,727 - 55,615,741 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381955,316,030 - 55,627,461 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1955,316,295 - 55,627,309 (+)Ensemblmm10GRCm38
MGSCv371955,390,841 - 55,701,051 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361955,369,601 - 55,679,811 (+)NCBIMGSCv36mm8
Celera1957,507,484 - 57,817,205 (+)NCBICelera
Cytogenetic Map19D2NCBI
cM Map1951.35NCBI
Vti1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543117,542,979 - 17,919,191 (+)Ensembl
ChiLan1.0NW_00495543117,542,605 - 17,910,809 (+)NCBIChiLan1.0ChiLan1.0
VTI1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28124,322,328 - 124,825,855 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110124,327,795 - 124,831,021 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v010109,037,834 - 109,539,019 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110112,476,478 - 112,857,949 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10112,476,859 - 112,845,615 (+)EnsemblpanPan2panpan1.1
VTI1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12823,496,553 - 23,854,609 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2823,496,593 - 23,842,369 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2823,648,320 - 24,006,512 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02824,029,018 - 24,386,280 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2824,029,040 - 24,375,059 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12823,586,067 - 23,944,129 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02823,597,236 - 23,951,876 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02823,793,699 - 24,150,727 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Vti1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721322,089,354 - 22,551,182 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364863,010,490 - 3,347,424 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364863,010,169 - 3,353,512 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VTI1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14122,849,004 - 123,215,938 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.114122,848,727 - 123,217,568 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214133,772,147 - 133,859,216 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VTI1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.19105,330,089 - 105,828,029 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl9105,330,143 - 105,695,049 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604866,533,145 - 67,038,520 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vti1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473733,664,093 - 34,020,863 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473733,601,794 - 34,020,779 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:298
Count of miRNA genes:121
Interacting mature miRNAs:127
Transcripts:ENSRNOT00000066236, ENSRNOT00000067460
Prediction methods:Microtar, Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1154961463266453731Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1208479811269633915Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1263946994269633915Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753266453731Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1224633915269633915Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1232312773270518180Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1186658830266453731Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1226175591270518180Rat
1578775Iddm21Insulin dependent diabetes mellitus QTL 214.13blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1245782829270518180Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1205233991267096252Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1186658830266453731Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1248619887269633915Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1176288899270518180Rat
631836Stl31Serum triglyceride level QTL 314.645e-06blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1247133834270518180Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1162548015270518180Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1152919152268496042Rat
1600390Niddm64Non-insulin dependent diabetes mellitus QTL 640.003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1257624997270518180Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1237995023269633915Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1233480549270108840Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1234540191270518180Rat
7387289Uae45Urinary albumin excretion QTL 452.860.0021urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1233204160270518180Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1233480549270108840Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1207163993269633915Rat
1598839Rf56Renal function QTL 56renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1255849111270518180Rat
1581544Rf52Renal function QTL 520.05urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1241569529269633915Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1243953669270518180Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1225108840270108840Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1185857683270518180Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1226175591270518180Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233349180270518180Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1228174566270518180Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1228180370266453608Rat

Markers in Region
D1Rat87  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21254,527,799 - 254,527,966 (+)MAPPERmRatBN7.2
Rnor_6.01276,479,854 - 276,480,020NCBIRnor6.0
Rnor_5.01283,874,199 - 283,874,365UniSTSRnor5.0
RGSC_v3.41261,771,754 - 261,772,403UniSTSRGSC3.4
RGSC_v3.41261,771,753 - 261,771,920RGDRGSC3.4
RGSC_v3.41261,771,754 - 261,771,920UniSTSRGSC3.4
Celera1250,232,535 - 250,232,681UniSTS
RGSC_v3.11261,982,799 - 261,982,965RGD
RH 3.4 Map11683.4RGD
RH 3.4 Map11683.4UniSTS
RH 2.0 Map11270.2RGD
SHRSP x BN Map1143.63RGD
Cytogenetic Map1q55UniSTS
RH128782  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21254,627,635 - 254,627,833 (+)MAPPERmRatBN7.2
Rnor_6.01276,578,740 - 276,578,937NCBIRnor6.0
Rnor_5.01283,972,264 - 283,972,461UniSTSRnor5.0
RGSC_v3.41261,872,624 - 261,872,821UniSTSRGSC3.4
Celera1250,332,557 - 250,332,754UniSTS
Celera1250,323,104 - 250,323,301UniSTS
RH 3.4 Map11649.6UniSTS
Cytogenetic Map1q55UniSTS
RH143954  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21254,432,108 - 254,432,217 (+)MAPPERmRatBN7.2
Rnor_6.01276,385,553 - 276,385,661NCBIRnor6.0
Rnor_5.01283,779,898 - 283,780,006UniSTSRnor5.0
RGSC_v3.41261,676,174 - 261,676,282UniSTSRGSC3.4
Celera1250,138,912 - 250,139,020UniSTS
RH 3.4 Map11683.9UniSTS
Cytogenetic Map1q55UniSTS
AA891586  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21254,369,124 - 254,369,259 (+)MAPPERmRatBN7.2
Rnor_6.01276,322,689 - 276,322,823NCBIRnor6.0
Rnor_5.01283,717,521 - 283,717,655UniSTSRnor5.0
Celera1250,075,820 - 250,075,954UniSTS
RH 3.4 Map11652.5UniSTS
Cytogenetic Map1q55UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_023101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090089 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090100 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063273082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF034238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF262221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF262222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000066236   ⟹   ENSRNOP00000061050
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1264,361,522 - 264,617,428 (+)Ensembl
mRatBN7.2 Ensembl1254,356,429 - 254,612,102 (+)Ensembl
Rnor_6.0 Ensembl1276,310,072 - 276,487,667 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000067460   ⟹   ENSRNOP00000058953
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1264,361,522 - 264,541,964 (+)Ensembl
mRatBN7.2 Ensembl1254,356,429 - 254,536,747 (+)Ensembl
Rnor_6.0 Ensembl1276,309,927 - 276,490,602 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108016   ⟹   ENSRNOP00000083070
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1264,361,743 - 264,667,141 (+)Ensembl
mRatBN7.2 Ensembl1254,356,429 - 254,661,852 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000139987   ⟹   ENSRNOP00000101418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1264,361,743 - 264,668,727 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000147737   ⟹   ENSRNOP00000103565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1264,361,522 - 264,600,883 (+)Ensembl
RefSeq Acc Id: NM_023101   ⟹   NP_075589
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,874 - 264,665,358 (+)NCBI
mRatBN7.21254,356,540 - 254,660,041 (+)NCBI
Rnor_6.01276,310,072 - 276,508,635 (+)NCBI
Rnor_5.01283,705,427 - 283,902,980 (+)NCBI
RGSC_v3.41261,664,003 - 261,905,744 (+)RGD
Celera1250,063,252 - 250,364,895 (+)RGD
Sequence:
RefSeq Acc Id: XM_039090066   ⟹   XP_038945994
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,667,171 (+)NCBI
mRatBN7.21254,356,343 - 254,661,854 (+)NCBI
RefSeq Acc Id: XM_039090071   ⟹   XP_038945999
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,667,171 (+)NCBI
mRatBN7.21254,356,343 - 254,661,854 (+)NCBI
RefSeq Acc Id: XM_039090073   ⟹   XP_038946001
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,667,171 (+)NCBI
mRatBN7.21254,356,343 - 254,661,854 (+)NCBI
RefSeq Acc Id: XM_039090081   ⟹   XP_038946009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,551,565 (+)NCBI
mRatBN7.21254,356,343 - 254,536,834 (+)NCBI
RefSeq Acc Id: XM_039090083   ⟹   XP_038946011
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,590,614 (+)NCBI
mRatBN7.21254,356,343 - 254,573,027 (+)NCBI
RefSeq Acc Id: XM_039090086   ⟹   XP_038946014
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,590,614 (+)NCBI
mRatBN7.21254,356,343 - 254,559,452 (+)NCBI
RefSeq Acc Id: XM_039090088   ⟹   XP_038946016
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,665,371 (+)NCBI
mRatBN7.21254,356,343 - 254,660,023 (+)NCBI
RefSeq Acc Id: XM_039090089   ⟹   XP_038946017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,551,565 (+)NCBI
mRatBN7.21254,356,343 - 254,536,834 (+)NCBI
RefSeq Acc Id: XM_039090093   ⟹   XP_038946021
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,665,371 (+)NCBI
mRatBN7.21254,356,343 - 254,660,023 (+)NCBI
RefSeq Acc Id: XM_039090100   ⟹   XP_038946028
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,458,537 (+)NCBI
mRatBN7.21254,356,343 - 254,453,202 (+)NCBI
RefSeq Acc Id: XM_039090101   ⟹   XP_038946029
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,437,586 (+)NCBI
mRatBN7.21254,356,343 - 254,432,251 (+)NCBI
RefSeq Acc Id: XM_039090105   ⟹   XP_038946033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,455,744 (+)NCBI
mRatBN7.21254,356,343 - 254,450,586 (+)NCBI
RefSeq Acc Id: XM_039090108   ⟹   XP_038946036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,458,537 (+)NCBI
mRatBN7.21254,356,343 - 254,453,202 (+)NCBI
RefSeq Acc Id: XM_039090113   ⟹   XP_038946041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,437,586 (+)NCBI
mRatBN7.21254,356,343 - 254,432,251 (+)NCBI
RefSeq Acc Id: XM_039090117   ⟹   XP_038946045
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,455,744 (+)NCBI
mRatBN7.21254,356,343 - 254,450,586 (+)NCBI
RefSeq Acc Id: XM_039090126   ⟹   XP_038946054
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,538 - 264,383,077 (+)NCBI
mRatBN7.21254,356,343 - 254,377,734 (+)NCBI
RefSeq Acc Id: XM_063273054   ⟹   XP_063129124
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,551,565 (+)NCBI
RefSeq Acc Id: XM_063273055   ⟹   XP_063129125
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,551,565 (+)NCBI
RefSeq Acc Id: XM_063273082   ⟹   XP_063129152
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81264,361,643 - 264,540,943 (+)NCBI
Protein Sequences
Protein RefSeqs NP_075589 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945994 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945999 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946001 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946009 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946011 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946014 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946016 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946017 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946021 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946028 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946029 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946033 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946036 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946041 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946045 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946054 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129124 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129125 (Get FASTA)   NCBI Sequence Viewer  
  XP_063129152 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF97790 (Get FASTA)   NCBI Sequence Viewer  
  AAF97791 (Get FASTA)   NCBI Sequence Viewer  
  EDL94471 (Get FASTA)   NCBI Sequence Viewer  
  EDL94472 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000058953
  ENSRNOP00000061050
  ENSRNOP00000083070
  ENSRNOP00000083070.1
  ENSRNOP00000101418
  ENSRNOP00000103565
GenBank Protein Q9JI51 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_075589   ⟸   NM_023101
- UniProtKB: A6JHZ7 (UniProtKB/TrEMBL),   F1M938 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058953   ⟸   ENSRNOT00000067460
Ensembl Acc Id: ENSRNOP00000061050   ⟸   ENSRNOT00000066236
RefSeq Acc Id: XP_038945994   ⟸   XM_039090066
- Peptide Label: isoform X1
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038945999   ⟸   XM_039090071
- Peptide Label: isoform X2
- UniProtKB: Q9JI51 (UniProtKB/Swiss-Prot),   Q9JI52 (UniProtKB/Swiss-Prot),   A6JHZ6 (UniProtKB/TrEMBL),   F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946001   ⟸   XM_039090073
- Peptide Label: isoform X3
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946016   ⟸   XM_039090088
- Peptide Label: isoform X9
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946021   ⟸   XM_039090093
- Peptide Label: isoform X10
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946011   ⟸   XM_039090083
- Peptide Label: isoform X5
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946014   ⟸   XM_039090086
- Peptide Label: isoform X7
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946017   ⟸   XM_039090089
- Peptide Label: isoform X9
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946009   ⟸   XM_039090081
- Peptide Label: isoform X4
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946028   ⟸   XM_039090100
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038946036   ⟸   XM_039090108
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038946033   ⟸   XM_039090105
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038946045   ⟸   XM_039090117
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038946029   ⟸   XM_039090101
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038946041   ⟸   XM_039090113
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038946054   ⟸   XM_039090126
- Peptide Label: isoform X18
- UniProtKB: A6JHZ9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000083070   ⟸   ENSRNOT00000108016
RefSeq Acc Id: XP_063129124   ⟸   XM_063273054
- Peptide Label: isoform X6
- UniProtKB: F1LT41 (UniProtKB/TrEMBL),   F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129125   ⟸   XM_063273055
- Peptide Label: isoform X8
- UniProtKB: F1M938 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129152   ⟸   XM_063273082
- Peptide Label: isoform X17
Ensembl Acc Id: ENSRNOP00000103565   ⟸   ENSRNOT00000147737
Ensembl Acc Id: ENSRNOP00000101418   ⟸   ENSRNOT00000139987
Protein Domains
t-SNARE coiled-coil homology   Vesicle transport v-SNARE N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JI51-F1-model_v2 AlphaFold Q9JI51 1-224 view protein structure

Transcriptome

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

Promoters
RGD ID:13691003
Promoter ID:EPDNEW_R1524
Type:initiation region
Name:Vti1a_1
Description:vesicle transport through interaction with t-SNAREs 1A
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_6.01276,309,974 - 276,310,034EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621490 AgrOrtholog
BioCyc Gene G2FUF-55344 BioCyc
Ensembl Genes ENSRNOG00000042786 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000066236 ENTREZGENE
  ENSRNOT00000067460 ENTREZGENE
  ENSRNOT00000108016 ENTREZGENE
  ENSRNOT00000108016.1 UniProtKB/Swiss-Prot
  ENSRNOT00000139987 ENTREZGENE
  ENSRNOT00000147737 ENTREZGENE
Gene3D-CATH 1.20.5.110 UniProtKB/Swiss-Prot
  1.20.58.400 UniProtKB/Swiss-Prot
InterPro GOSR2/Membrin/Bos1 UniProtKB/Swiss-Prot
  SNARE UniProtKB/Swiss-Prot
  T_SNARE_dom UniProtKB/Swiss-Prot
  v-SNARE_N_sf UniProtKB/Swiss-Prot
  Vesicle_trsprt_v-SNARE_N UniProtKB/Swiss-Prot
KEGG Report rno:65277 UniProtKB/Swiss-Prot
NCBI Gene 65277 ENTREZGENE
PANTHER VESICLE TRANSPORT THROUGH INTERACTION WITH T-SNARES HOMOLOG 1A UniProtKB/Swiss-Prot
  VESICLE TRANSPORT V-SNARE PROTEIN VTI1-RELATED UniProtKB/Swiss-Prot
Pfam V-SNARE UniProtKB/Swiss-Prot
  V-SNARE_C UniProtKB/Swiss-Prot
PhenoGen Vti1a PhenoGen
PIRSF Membrin-2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000042786 RatGTEx
SMART t_SNARE UniProtKB/Swiss-Prot
Superfamily-SCOP SNARE fusion complex UniProtKB/Swiss-Prot
  SSF47661 UniProtKB/Swiss-Prot
UniProt A6JHZ6 ENTREZGENE, UniProtKB/TrEMBL
  A6JHZ7 ENTREZGENE, UniProtKB/TrEMBL
  A6JHZ9 ENTREZGENE, UniProtKB/TrEMBL
  F1LT41 ENTREZGENE, UniProtKB/TrEMBL
  F1M938 ENTREZGENE, UniProtKB/TrEMBL
  Q9JI51 ENTREZGENE
  Q9JI52 ENTREZGENE
  VTI1A_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q9JI52 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-18 Vti1a  vesicle transport through interaction with t-SNAREs 1A  Vti1a  vesicle transport through interaction with t-SNAREs homolog 1A (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Vti1a  vesicle transport through interaction with t-SNAREs homolog 1A (yeast)      Symbol and Name status set to approved 625702 APPROVED
2003-11-10 Vti1a  vesicle transport through interaction with t-SNAREs homolog 1A (yeast)  Vti1-pending  SNARE Vti1a-beta protein  Symbol and Name updated to reflect Human and Mouse nomenclature 625702 PROVISIONAL
2002-08-07 Vti1-pending  SNARE Vti1a-beta protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization splice variant Vti1a_v2, in contrast to Vti1a_v1, is enriched in synaptic vesicles and colocalizes with synaptobrevin 634537
gene_cellular_localization in neurons found in cell body and nerve terminals 634537