Myrip (myosin VIIA and Rab interacting protein) - Rat Genome Database
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Gene: Myrip (myosin VIIA and Rab interacting protein) Rattus norvegicus
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Symbol: Myrip
Name: myosin VIIA and Rab interacting protein
RGD ID: 727731
Description: Exhibits protein kinase A binding activity. Involved in positive regulation of insulin secretion. Localizes to apical plasma membrane; perinuclear region of cytoplasm; and secretory granule. Orthologous to human MYRIP (myosin VIIA and Rab interacting protein); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: exophilin-8; myosin-VIIa- and Rab-interacting protein; rab effector MyRIP; slaC2-c; Slac2c; slp homolog lacking C2 domains c; synaptotagmin-like protein lacking C2 domains C
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
Rnor_6.08128,972,307 - 129,139,257 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,972,311 - 129,139,251 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08128,171,783 - 128,337,841 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48125,317,671 - 125,478,667 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18125,337,407 - 125,492,971 (+)NCBI
Celera8119,163,194 - 119,324,938 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
actin binding  (IBA,IEA,ISO)
metal ion binding  (IEA)
myosin binding  (IBA,IEA,ISO)
protein binding  (IPI,ISO)
protein kinase A binding  (IDA,IEA,ISO)
small GTPase binding  (IBA,IEA,ISO)

References

Additional References at PubMed
PMID:12221080  


Genomics

Comparative Map Data
Myrip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.08128,972,307 - 129,139,257 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,972,311 - 129,139,251 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08128,171,783 - 128,337,841 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48125,317,671 - 125,478,667 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18125,337,407 - 125,492,971 (+)NCBI
Celera8119,163,194 - 119,324,938 (+)NCBICelera
Cytogenetic Map8q32NCBI
MYRIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl339,808,914 - 40,260,321 (+)EnsemblGRCh38hg38GRCh38
GRCh38339,808,914 - 40,260,321 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37339,850,405 - 40,301,812 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36339,826,307 - 40,276,816 (+)NCBINCBI36hg18NCBI36
Build 34339,826,306 - 40,276,808NCBI
Celera339,793,218 - 40,244,467 (+)NCBI
Cytogenetic Map3p22.1NCBI
HuRef339,894,694 - 40,345,886 (+)NCBIHuRef
CHM1_1339,801,261 - 40,251,713 (+)NCBICHM1_1
Myrip
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399120,132,996 - 120,305,167 (+)NCBIGRCm39mm39
GRCm389120,303,520 - 120,476,101 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9120,301,513 - 120,474,841 (+)EnsemblGRCm38mm10GRCm38
MGSCv379120,213,191 - 120,383,952 (+)NCBIGRCm37mm9NCBIm37
MGSCv369120,152,771 - 120,323,532 (+)NCBImm8
Celera9120,765,412 - 120,944,453 (+)NCBICelera
Cytogenetic Map9F4NCBI
Myrip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542029,540,027 - 29,696,504 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542029,542,479 - 29,697,646 (-)NCBIChiLan1.0ChiLan1.0
MYRIP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1339,991,586 - 40,435,763 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl340,079,777 - 40,433,613 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0339,715,890 - 40,163,826 (+)NCBIMhudiblu_PPA_v0panPan3
MYRIP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl239,448,559 - 9,763,182 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1239,448,564 - 9,765,328 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Myrip
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647328,921,837 - 29,252,737 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MYRIP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1324,347,660 - 24,556,735 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11324,347,574 - 24,556,743 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21326,806,466 - 26,855,152 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103227432
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1221,369,820 - 1,765,121 (+)NCBI
ChlSab1.1 Ensembl221,370,001 - 1,765,311 (+)Ensembl
Myrip
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473078,388,192 - 78,582,051 (-)NCBI

Position Markers
BF416406  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08129,121,990 - 129,122,220NCBIRnor6.0
Rnor_5.08128,320,277 - 128,320,507UniSTSRnor5.0
RGSC_v3.48125,462,150 - 125,462,380UniSTSRGSC3.4
Celera8119,309,656 - 119,309,886UniSTS
Cytogenetic Map8q32UniSTS
RH 3.4 Map81284.4UniSTS
BF416438  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.08129,116,917 - 129,117,009NCBIRnor6.0
Rnor_5.08128,315,204 - 128,315,296UniSTSRnor5.0
RGSC_v3.48125,456,680 - 125,456,772UniSTSRGSC3.4
Celera8119,304,878 - 119,304,970UniSTS
Cytogenetic Map8q32UniSTS
RH 3.4 Map81284.4UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)889058229132243842Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8100873811133307652Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102051964133307652Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8104682575133307652Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)8104682575133307652Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8107769005129956433Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:95
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000025460
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 1 1 2 40 9 11
Low 2 40 30 20 6 20 8 11 30 35 32 8
Below cutoff 2 25 21 13 21 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_182844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595709 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07071746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07071747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01057570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY331984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000025460   ⟹   ENSRNOP00000025460
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl8128,972,311 - 129,139,251 (+)Ensembl
RefSeq Acc Id: NM_182844   ⟹   NP_878264
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08129,003,687 - 129,137,284 (+)NCBI
Rnor_5.08128,171,783 - 128,337,841 (+)NCBI
RGSC_v3.48125,317,671 - 125,478,667 (+)RGD
Celera8119,163,194 - 119,324,938 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006244110   ⟹   XP_006244172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08128,972,307 - 129,139,257 (+)NCBI
Rnor_5.08128,171,783 - 128,337,841 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008766686   ⟹   XP_008764908
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08129,082,621 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008766687   ⟹   XP_008764909
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08129,081,773 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595708   ⟹   XP_017451197
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08128,972,434 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595709   ⟹   XP_017451198
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08128,972,318 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595710   ⟹   XP_017451199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08128,972,475 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595711   ⟹   XP_017451200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08128,972,475 - 129,139,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595712   ⟹   XP_017451201
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08129,089,064 - 129,139,257 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_878264   ⟸   NM_182844
- UniProtKB: Q7TNY7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006244172   ⟸   XM_006244110
- Peptide Label: isoform X1
- UniProtKB: D3ZTL2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764909   ⟸   XM_008766687
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008764908   ⟸   XM_008766686
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017451198   ⟸   XM_017595709
- Peptide Label: isoform X1
- UniProtKB: D3ZTL2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017451197   ⟸   XM_017595708
- Peptide Label: isoform X1
- UniProtKB: D3ZTL2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017451199   ⟸   XM_017595710
- Peptide Label: isoform X1
- UniProtKB: D3ZTL2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017451200   ⟸   XM_017595711
- Peptide Label: isoform X1
- UniProtKB: D3ZTL2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017451201   ⟸   XM_017595712
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000025460   ⟸   ENSRNOT00000025460
Protein Domains
RabBD

Transcriptome

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


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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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:727731 AgrOrtholog
Ensembl Genes ENSRNOG00000018797 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025460 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025460 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro FYVE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Myrip/Melanophilin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rab_BD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:360034 UniProtKB/Swiss-Prot
NCBI Gene 360034 ENTREZGENE
Pfam FYVE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rab_eff_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Myrip PhenoGen
PROSITE RABBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57903 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZTL2 ENTREZGENE, UniProtKB/TrEMBL
  MYRIP_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Myrip  myosin VIIA and Rab interacting protein      Symbol and Name status set to approved 1299863 APPROVED