Vps26a (VPS26 retromer complex component A) - Rat Genome Database

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Gene: Vps26a (VPS26 retromer complex component A) Rattus norvegicus
Analyze
Symbol: Vps26a
Name: VPS26 retromer complex component A
RGD ID: 1359254
Description: Predicted to be involved in endocytic recycling; intracellular protein transport; and retrograde transport, endosome to Golgi. Located in cytosol. Part of retromer complex. Orthologous to human VPS26A (VPS26 retromer complex component A); PARTICIPATES IN retromer-mediated pathway; INTERACTS WITH 1,3-dinitrobenzene; 2,2',4,4'-Tetrabromodiphenyl ether; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: H beta 58; MGC94168; similar to vacuolar protein sorting 26; vacuolar protein sorting 26 (yeast); vacuolar protein sorting 26 homolog A; vacuolar protein sorting 26 homolog A (S. pombe); vacuolar protein sorting 26 homolog A (yeast); vacuolar protein sorting-associated protein 26A; vacuole protein sorting 26; vesicle protein sorting 26A; Vps26; VPS26 retromer complex comonent A
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
mRatBN7.22030,404,320 - 30,434,266 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2030,404,325 - 30,434,131 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2031,416,512 - 31,445,105 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02030,807,416 - 30,836,009 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02031,544,156 - 31,572,783 (-)NCBIRnor_WKY
Rnor_6.02032,085,465 - 32,115,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2032,086,746 - 32,115,357 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02033,873,719 - 33,903,564 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42029,709,097 - 29,737,707 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12029,722,899 - 29,751,507 (-)NCBI
Celera2031,825,749 - 31,854,343 (-)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cellular_component  (ND)
cytosol  (IDA,ISO)
early endosome  (ISO,ISS)
endosome  (IBA,IEA,ISO,ISS)
endosome membrane  (ISO)
lysosome  (IEA,ISO)
retromer complex  (IBA,IDA,ISO)
retromer, cargo-selective complex  (ISO)
tubular endosome  (ISO,ISS)
vesicle  (ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer assembly. Collins BM, etal., Nat Struct Mol Biol 2005 Jul;12(7):594-602. Epub 2005 Jun 19.
2. Retromer and sorting nexins in endosomal sorting. Gallon M and Cullen PJ, Biochem Soc Trans. 2015 Feb;43(1):33-47. doi: 10.1042/BST20140290.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Human orthologs of yeast vacuolar protein sorting proteins Vps26, 29, and 35: assembly into multimeric complexes. Haft CR, etal., Mol Biol Cell. 2000 Dec;11(12):4105-16.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. 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:15078902   PMID:15078903   PMID:15489334   PMID:20682791   PMID:21040701   PMID:21602791   PMID:21920005   PMID:22431521   PMID:22871113   PMID:23376485   PMID:26538661   PMID:27385586  
PMID:28892079  


Genomics

Comparative Map Data
Vps26a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22030,404,320 - 30,434,266 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2030,404,325 - 30,434,131 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2031,416,512 - 31,445,105 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02030,807,416 - 30,836,009 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02031,544,156 - 31,572,783 (-)NCBIRnor_WKY
Rnor_6.02032,085,465 - 32,115,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2032,086,746 - 32,115,357 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02033,873,719 - 33,903,564 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42029,709,097 - 29,737,707 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12029,722,899 - 29,751,507 (-)NCBI
Celera2031,825,749 - 31,854,343 (-)NCBICelera
Cytogenetic Map20q11NCBI
VPS26A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381069,124,178 - 69,174,412 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1069,123,512 - 69,174,412 (+)EnsemblGRCh38hg38GRCh38
GRCh371070,883,934 - 70,934,168 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361070,553,914 - 70,602,623 (+)NCBINCBI36Build 36hg18NCBI36
Build 341070,553,961 - 70,602,620NCBI
Celera1064,159,753 - 64,208,441 (+)NCBICelera
Cytogenetic Map10q22.1NCBI
HuRef1064,883,995 - 64,932,609 (+)NCBIHuRef
CHM1_11071,165,664 - 71,214,351 (+)NCBICHM1_1
T2T-CHM13v2.01069,992,582 - 70,042,751 (+)NCBIT2T-CHM13v2.0
Vps26a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391062,290,622 - 62,322,584 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1062,291,014 - 62,322,584 (-)EnsemblGRCm39 Ensembl
GRCm381062,454,843 - 62,486,805 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1062,455,235 - 62,486,805 (-)EnsemblGRCm38mm10GRCm38
MGSCv371061,917,591 - 61,949,553 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361061,850,629 - 61,882,109 (-)NCBIMGSCv36mm8
Celera1063,558,008 - 63,589,887 (-)NCBICelera
Cytogenetic Map10B4NCBI
Vps26a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543721,910,680 - 21,944,428 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543721,911,111 - 21,944,888 (-)NCBIChiLan1.0ChiLan1.0
VPS26A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11068,125,404 - 68,173,317 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1068,125,409 - 68,173,317 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01065,591,415 - 65,639,894 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
VPS26A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1420,265,120 - 20,296,125 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl420,264,905 - 20,294,674 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha420,395,086 - 20,426,407 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0420,537,258 - 20,568,348 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl420,512,281 - 20,568,600 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1420,437,714 - 20,469,018 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0420,640,702 - 20,672,002 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0420,984,094 - 21,015,442 (+)NCBIUU_Cfam_GSD_1.0
Vps26a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721360,776,985 - 60,815,318 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365219,269,714 - 9,308,016 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS26A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1472,210,520 - 72,241,440 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11472,210,486 - 72,241,441 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21478,227,157 - 78,258,126 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS26A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1962,148,194 - 62,199,167 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl962,148,025 - 62,199,447 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604822,888,357 - 22,939,899 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps26a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247543,425,706 - 3,468,037 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247543,425,614 - 3,468,037 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
BE114352  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22030,427,431 - 30,427,600 (+)MAPPERmRatBN7.2
Rnor_6.02032,108,551 - 32,108,719NCBIRnor6.0
Rnor_5.02033,896,805 - 33,896,973UniSTSRnor5.0
RGSC_v3.42029,730,948 - 29,731,116UniSTSRGSC3.4
Celera2031,847,584 - 31,847,752UniSTS
RH 3.4 Map20309.06UniSTS
Cytogenetic Map20q11UniSTS
RH140138  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22030,404,615 - 30,404,825 (+)MAPPERmRatBN7.2
Rnor_6.02032,085,761 - 32,085,970NCBIRnor6.0
Rnor_5.02033,874,015 - 33,874,224UniSTSRnor5.0
RGSC_v3.42029,708,115 - 29,708,324UniSTSRGSC3.4
Celera2031,824,767 - 31,824,976UniSTS
Cytogenetic Map20q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202924438854435887Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:166
Count of miRNA genes:134
Interacting mature miRNAs:153
Transcripts:ENSRNOT00000067883
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

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

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067883   ⟹   ENSRNOP00000062170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2030,404,325 - 30,434,107 (-)Ensembl
Rnor_6.0 Ensembl2032,086,746 - 32,115,310 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081916   ⟹   ENSRNOP00000070391
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2030,404,325 - 30,434,131 (-)Ensembl
Rnor_6.0 Ensembl2032,088,521 - 32,115,357 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094610   ⟹   ENSRNOP00000096616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2030,404,325 - 30,420,499 (-)Ensembl
RefSeq Acc Id: NM_001007740   ⟹   NP_001007741
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,405,598 - 30,434,191 (-)NCBI
Rnor_6.02032,086,743 - 32,115,310 (-)NCBI
Rnor_5.02033,873,719 - 33,903,564 (-)NCBI
RGSC_v3.42029,709,097 - 29,737,707 (-)RGD
Celera2031,825,749 - 31,854,343 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256460   ⟹   XP_006256522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,404,320 - 30,434,033 (-)NCBI
Rnor_6.02032,085,465 - 32,115,147 (-)NCBI
Rnor_5.02033,873,719 - 33,903,564 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601692   ⟹   XP_017457181
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,404,320 - 30,428,164 (-)NCBI
Rnor_6.02032,085,465 - 32,109,234 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098875   ⟹   XP_038954803
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,404,320 - 30,434,038 (-)NCBI
RefSeq Acc Id: XM_039098876   ⟹   XP_038954804
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,404,320 - 30,434,266 (-)NCBI
RefSeq Acc Id: XM_039098877   ⟹   XP_038954805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,404,320 - 30,433,986 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001007741   ⟸   NM_001007740
- UniProtKB: Q6AY86 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006256522   ⟸   XM_006256460
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457181   ⟸   XM_017601692
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000062170   ⟸   ENSRNOT00000067883
RefSeq Acc Id: ENSRNOP00000070391   ⟸   ENSRNOT00000081916
RefSeq Acc Id: XP_038954804   ⟸   XM_039098876
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038954803   ⟸   XM_039098875
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954805   ⟸   XM_039098877
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000096616   ⟸   ENSRNOT00000094610

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY86-F1-model_v2 AlphaFold Q6AY86 1-327 view protein structure

Transcriptome

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

Promoters
RGD ID:13701613
Promoter ID:EPDNEW_R12137
Type:initiation region
Name:Vps26a_1
Description:VPS26 retromer complex component A
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_6.02032,115,324 - 32,115,384EPDNEW

Strain Variation

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


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 32115013 32115014 A C snv LEW/Crl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359254 AgrOrtholog
BioCyc Gene G2FUF-3692 BioCyc
Ensembl Genes ENSRNOG00000030683 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000062170 ENTREZGENE
  ENSRNOP00000062170.2 UniProtKB/TrEMBL
  ENSRNOP00000070391 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOP00000096616.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067883 ENTREZGENE
  ENSRNOT00000067883.3 UniProtKB/TrEMBL
  ENSRNOT00000081916 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOT00000094610.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.640 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7128580 IMAGE-MGC_LOAD
InterPro Arrestin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps26-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361846 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94168 IMAGE-MGC_LOAD
NCBI Gene 361846 ENTREZGENE
PANTHER PTHR12233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Vps26 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vps26a PhenoGen
UniProt A0A0G2JXT0_RAT UniProtKB/TrEMBL
  A0A8I6B4G8_RAT UniProtKB/TrEMBL
  A0A8L2QWS2_RAT UniProtKB/TrEMBL
  Q6AY86 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-09 Vps26a  VPS26 retromer complex component A  Vps26a  VPS26 retromer complex comonent A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-01 Vps26a  VPS26 retromer complex comonent A  Vps26a  vacuolar protein sorting 26 homolog A (S. pombe)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Vps26a  vacuolar protein sorting 26 homolog A (S. pombe)  Vps26a  vacuolar protein sorting 26 homolog A (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Vps26a  vacuolar protein sorting 26 homolog A (yeast)  Vps26  vacuolar protein sorting 26 (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Vps26  vacuolar protein sorting 26 (yeast)  MGC94168  similar to vacuolar protein sorting 26; vacuole protein sorting 26; H beta 58  Symbol and Name updated 1299863 APPROVED
2005-07-29 MGC94168  similar to vacuolar protein sorting 26; vacuole protein sorting 26; H beta 58      Symbol and Name status set to provisional 70820 PROVISIONAL