Uso1 (USO1 vesicle transport factor) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Uso1 (USO1 vesicle transport factor) Rattus norvegicus
Analyze
Symbol: Uso1
Name: USO1 vesicle transport factor
RGD ID: 621604
Description: Involved in endoplasmic reticulum to Golgi vesicle-mediated transport; membrane fusion; and transcytosis. Predicted to localize to several cellular components, including exocytic vesicle; fibrillar center; and perinuclear region of cytoplasm. Orthologous to human USO1 (USO1 vesicle transport factor); PARTICIPATES IN Arf family mediated signaling pathway; INTERACTS WITH 2,4-dinitrotoluene; acrylamide; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: general vesicular transport factor p115; protein USO1 homolog; TAP; transcytosis associated protein; transcytosis-associated protein; USO1 homolog, vesicle docking protein; USO1 homolog, vesicle docking protein (yeast); USO1 vesicle docking protein homolog; USO1 vesicle docking protein homolog (yeast); Vdp; vesicle docking protein; vesicle docking protein, 115 kDa; vesicle-docking protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21415,866,638 - 15,932,185 (-)NCBI
Rnor_6.0 Ensembl1417,371,453 - 17,436,897 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01417,371,451 - 17,436,948 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01417,289,138 - 17,354,629 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41417,414,403 - 17,480,241 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11417,414,402 - 17,480,241 (-)NCBI
Celera1415,262,274 - 15,328,301 (-)NCBICelera
Cytogenetic Map14p22NCBI
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

Cellular Component

Molecular Function
protein binding  (IPI,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:15800058   PMID:15878873   PMID:16641100   PMID:18434597   PMID:18504258   PMID:19946888   PMID:22658674   PMID:23185636   PMID:24625528   PMID:25406594   PMID:25468996  


Genomics

Comparative Map Data
Uso1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21415,866,638 - 15,932,185 (-)NCBI
Rnor_6.0 Ensembl1417,371,453 - 17,436,897 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01417,371,451 - 17,436,948 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01417,289,138 - 17,354,629 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41417,414,403 - 17,480,241 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11417,414,402 - 17,480,241 (-)NCBI
Celera1415,262,274 - 15,328,301 (-)NCBICelera
Cytogenetic Map14p22NCBI
USO1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl475,724,593 - 75,814,286 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl475,724,577 - 75,814,286 (+)EnsemblGRCh38hg38GRCh38
GRCh38475,724,522 - 75,814,286 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37476,649,761 - 76,735,439 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36476,868,853 - 76,954,390 (+)NCBINCBI36hg18NCBI36
Build 34477,007,007 - 77,092,543NCBI
Celera473,946,229 - 74,035,768 (+)NCBI
Cytogenetic Map4q21.1NCBI
HuRef472,397,753 - 72,487,978 (+)NCBIHuRef
CHM1_1476,626,424 - 76,712,091 (+)NCBICHM1_1
Uso1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39592,285,734 - 92,350,659 (+)NCBIGRCm39mm39
GRCm39 Ensembl592,285,797 - 92,350,657 (+)Ensembl
GRCm38592,137,909 - 92,202,800 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl592,137,938 - 92,202,798 (+)EnsemblGRCm38mm10GRCm38
MGSCv37592,566,964 - 92,631,821 (+)NCBIGRCm37mm9NCBIm37
MGSCv36593,213,138 - 93,277,995 (+)NCBImm8
Celera590,281,456 - 90,346,290 (+)NCBICelera
Cytogenetic Map5E2NCBI
Uso1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554741,647,361 - 1,705,548 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554741,647,670 - 1,704,869 (+)NCBIChiLan1.0ChiLan1.0
USO1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1454,229,601 - 54,317,402 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl454,229,601 - 54,317,158 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0448,391,293 - 48,480,909 (-)NCBIMhudiblu_PPA_v0panPan3
USO1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl32305,935 - 394,896 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.132305,895 - 395,113 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Uso1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936598172,360 - 246,565 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USO1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl871,363,613 - 71,452,945 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1871,363,627 - 71,451,258 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2875,499,566 - 75,587,277 (+)NCBISscrofa10.2Sscrofa10.2susScr3
USO1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1724,236,601 - 24,325,575 (+)NCBI
ChlSab1.1 Ensembl724,236,698 - 24,325,630 (+)Ensembl
Uso1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473027,313 - 130,086 (-)NCBI

Position Markers
D14Hmgc11  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01417,432,320 - 17,432,613NCBIRnor6.0
Rnor_5.01417,349,999 - 17,350,292UniSTSRnor5.0
Celera1415,323,726 - 15,324,019UniSTS
Cytogenetic Map14p22UniSTS
D14Hmgc10  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01417,385,559 - 17,385,806NCBIRnor6.0
Rnor_5.01417,303,246 - 17,303,493UniSTSRnor5.0
Celera1415,276,380 - 15,276,627UniSTS
Cytogenetic Map14p22UniSTS
D14Hmgc9  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01417,380,592 - 17,380,821NCBIRnor6.0
Rnor_5.01417,298,279 - 17,298,508UniSTSRnor5.0
Celera1415,271,413 - 15,271,642UniSTS
Cytogenetic Map14p22UniSTS
RH140889  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01417,371,638 - 17,371,820NCBIRnor6.0
Rnor_5.01417,289,325 - 17,289,507UniSTSRnor5.0
RGSC_v3.41417,414,588 - 17,414,770UniSTSRGSC3.4
Celera1415,262,459 - 15,262,641UniSTS
RH 3.4 Map14159.88UniSTS
Cytogenetic Map14p22UniSTS
BI277889  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01417,372,952 - 17,373,109NCBIRnor6.0
Rnor_5.01417,290,639 - 17,290,796UniSTSRnor5.0
RGSC_v3.41417,415,902 - 17,416,059UniSTSRGSC3.4
Celera1415,263,773 - 15,263,930UniSTS
RH 3.4 Map14181.19UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14483323326466248Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14222782519230541Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141268061332593926Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)141053997755539977Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14483323333040042Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)141072926861873323Rat
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14483323323004027Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141633698833163485Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14483323319909932Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14483323319909932Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141268042430155192Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin141053997755539977Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14141333960Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14141333960Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:341
Count of miRNA genes:218
Interacting mature miRNAs:257
Transcripts:ENSRNOT00000003277
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 40 11 8
Low 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003277   ⟹   ENSRNOP00000003277
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1417,371,453 - 17,436,897 (-)Ensembl
RefSeq Acc Id: NM_019379   ⟹   NP_062252
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21415,866,640 - 15,932,108 (-)NCBI
Rnor_6.01417,371,453 - 17,436,897 (-)NCBI
Rnor_5.01417,289,138 - 17,354,629 (-)NCBI
RGSC_v3.41417,414,403 - 17,480,241 (-)RGD
Celera1415,262,274 - 15,328,301 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250750   ⟹   XP_006250812
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21415,866,638 - 15,932,185 (-)NCBI
Rnor_6.01417,371,451 - 17,436,948 (-)NCBI
Rnor_5.01417,289,138 - 17,354,629 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092344   ⟹   XP_038948272
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21415,866,638 - 15,932,178 (-)NCBI
RefSeq Acc Id: XM_039092345   ⟹   XP_038948273
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21415,867,347 - 15,932,178 (-)NCBI
RefSeq Acc Id: XM_039092346   ⟹   XP_038948274
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21415,866,638 - 15,932,179 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_062252   ⟸   NM_019379
- Sequence:
RefSeq Acc Id: XP_006250812   ⟸   XM_006250750
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000003277   ⟸   ENSRNOT00000003277
RefSeq Acc Id: XP_038948274   ⟸   XM_039092346
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948272   ⟸   XM_039092344
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948273   ⟸   XM_039092345
- Peptide Label: isoform X3

Transcriptome

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

Promoters
RGD ID:13699216
Promoter ID:EPDNEW_R9741
Type:initiation region
Name:Uso1_1
Description:USO1 vesicle transport factor
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_6.01417,436,927 - 17,436,987EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621604 AgrOrtholog
Ensembl Genes ENSRNOG00000002301 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000003277 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003277 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.10.10 UniProtKB/Swiss-Prot
InterPro ARM-like UniProtKB/Swiss-Prot
  ARM-type_fold UniProtKB/Swiss-Prot
  Armadillo UniProtKB/Swiss-Prot
  P115_Arm_rpt UniProtKB/Swiss-Prot
  Uso1_p115_C UniProtKB/Swiss-Prot
  Vesicle_Uso1_P115_head UniProtKB/Swiss-Prot
KEGG Report rno:56042 UniProtKB/Swiss-Prot
NCBI Gene 56042 ENTREZGENE
Pfam Arm_vescicular UniProtKB/Swiss-Prot
  Uso1_p115_C UniProtKB/Swiss-Prot
  Uso1_p115_head UniProtKB/Swiss-Prot
PhenoGen Uso1 PhenoGen
PROSITE ARM_REPEAT UniProtKB/Swiss-Prot
SMART ARM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot
UniProt P41542 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-12-18 Uso1  USO1 vesicle transport factor  Uso1  USO1 vesicle docking protein homolog (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-01 Uso1  USO1 vesicle docking protein homolog (yeast)  Uso1  USO1 homolog, vesicle docking protein (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-25 Uso1  USO1 homolog, vesicle docking protein (yeast)  Vdp  vesicle docking protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Vdp  vesicle docking protein    vesicle docking protein, 115 kDa  Name updated 1299863 APPROVED
2002-08-07 Vdp        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction protein binds with Plcg1 (phospholipase C gamma 1) via the Plcg1 SH2 and SH3 domains 734467
gene_process involved with regulation of vesicle transport via its association with Plgc1 (phospholipase C gamma 1) 734467
gene_process required for vesicle binding to the plasma membrane in transcytosis 730003
gene_process may play a role in cis to medial Golgi transport 730003
gene_process may act to facilitate membrane fusion 730003