Rasgef1b (RasGEF domain family, member 1B) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Rasgef1b (RasGEF domain family, member 1B) Rattus norvegicus
Analyze
Symbol: Rasgef1b
Name: RasGEF domain family, member 1B
RGD ID: 1562220
Description: Predicted to have Ras guanyl-nucleotide exchange factor activity. Predicted to be involved in small GTPase mediated signal transduction. Orthologous to human RASGEF1B (RasGEF domain family member 1B); INTERACTS WITH atrazine; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: MODEL
Also known as: GPIgamma4; LOC305185; ras-GEF domain-containing family member 1B; RGD1562220; similar to GPI-gamma 4
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
mRatBN7.2149,859,512 - 10,380,044 (+)NCBI
Rnor_6.0 Ensembl1411,988,671 - 12,027,381 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01411,499,692 - 12,028,513 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01411,443,555 - 11,970,191 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera149,959,604 - 10,471,954 (+)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

Biological Process

Molecular Function

References

References - curated
1. RGD automated data pipeline
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19645719  


Genomics

Comparative Map Data
Rasgef1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2149,859,512 - 10,380,044 (+)NCBI
Rnor_6.0 Ensembl1411,988,671 - 12,027,381 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01411,499,692 - 12,028,513 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01411,443,555 - 11,970,191 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera149,959,604 - 10,471,954 (+)NCBICelera
Cytogenetic Map14p22NCBI
RASGEF1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl481,426,393 - 82,044,244 (-)EnsemblGRCh38hg38GRCh38
GRCh38481,708,847 - 82,044,963 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38481,426,393 - 81,471,907 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37482,347,547 - 82,393,061 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37482,347,547 - 82,393,082 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36482,567,243 - 82,612,085 (-)NCBINCBI36hg18NCBI36
Build 34482,705,397 - 82,750,240NCBI
Celera479,640,936 - 79,685,783 (-)NCBI
Cytogenetic Map4q21.21NCBI
HuRef478,092,328 - 78,137,155 (-)NCBIHuRef
CHM1_1482,324,051 - 82,369,862 (-)NCBICHM1_1
Rasgef1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39599,365,279 - 99,400,786 (-)NCBIGRCm39mm39
GRCm38599,217,420 - 99,252,927 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl599,217,426 - 99,729,065 (-)EnsemblGRCm38mm10GRCm38
MGSCv37599,646,439 - 99,681,946 (-)NCBIGRCm37mm9NCBIm37
MGSCv36599,457,728 - 99,493,156 (-)NCBImm8
Celera596,540,748 - 96,576,465 (-)NCBICelera
Cytogenetic Map5E3NCBI
Rasgef1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554335,605,548 - 6,176,875 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554335,605,548 - 6,388,880 (-)NCBIChiLan1.0ChiLan1.0
RASGEF1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1448,004,185 - 48,620,978 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl448,004,253 - 48,620,978 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0442,153,818 - 42,771,749 (+)NCBIMhudiblu_PPA_v0panPan3
RASGEF1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl325,546,524 - 6,090,764 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1325,545,489 - 6,090,119 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Rasgef1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936749177,737 - 723,269 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RASGEF1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8136,071,354 - 136,600,317 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18135,896,022 - 136,595,051 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28145,834,823 - 145,887,685 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RASGEF1B
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1729,839,769 - 30,461,401 (-)NCBI
ChlSab1.1 Ensembl729,839,225 - 29,884,610 (-)Ensembl
Rasgef1b
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247578,968,020 - 9,565,981 (+)NCBI

Position Markers
RH144582  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01412,015,701 - 12,015,871NCBIRnor6.0
Rnor_5.01411,957,383 - 11,957,553UniSTSRnor5.0
RGSC_v3.41411,680,702 - 11,680,872UniSTSRGSC3.4
Celera1410,464,286 - 10,464,456UniSTS
BE097536  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01412,028,291 - 12,028,489NCBIRnor6.0
Rnor_5.01411,969,973 - 11,970,171UniSTSRnor5.0
RGSC_v3.41411,694,089 - 11,694,287UniSTSRGSC3.4
Celera1410,476,475 - 10,476,673UniSTS
BE106202  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01412,027,435 - 12,027,589NCBIRnor6.0
Rnor_5.01411,969,117 - 11,969,271UniSTSRnor5.0
RGSC_v3.41411,693,233 - 11,693,387UniSTSRGSC3.4
Celera1410,475,619 - 10,475,773UniSTS
RH 3.4 Map14211.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
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
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14222782512680613Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14222782519230541Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14483323319909932Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14483323319909932Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14483323323004027Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14483323326466248Rat
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
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin141053997755539977Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)141053997755539977Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)141072926861873323Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:103
Interacting mature miRNAs:105
Transcripts:ENSRNOT00000003207
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.


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 11 4 17 4 62 9 18 11
Low 43 46 37 2 37 8 9 12 26 23 8
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003207   ⟹   ENSRNOP00000003207
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1411,988,671 - 12,027,381 (+)Ensembl
RefSeq Acc Id: XM_002728083   ⟹   XP_002728129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21410,345,710 - 10,378,741 (+)NCBI
Rnor_6.01411,994,181 - 12,028,513 (+)NCBI
Rnor_5.01411,443,555 - 11,970,191 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764583   ⟹   XP_008762805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1410,442,766 - 10,471,954 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599427   ⟹   XP_017454916
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2149,859,512 - 10,380,044 (+)NCBI
Rnor_6.01411,499,693 - 12,028,513 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599428   ⟹   XP_017454917
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2149,859,512 - 10,380,044 (+)NCBI
Rnor_6.01411,499,692 - 12,028,513 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599429   ⟹   XP_017454918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21410,340,326 - 10,378,741 (+)NCBI
Rnor_6.01411,988,839 - 12,028,513 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017604760   ⟹   XP_017460249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera149,959,605 - 10,471,954 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017604761   ⟹   XP_017460250
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera149,959,604 - 10,471,954 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017604762   ⟹   XP_017460251
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1410,437,413 - 10,471,954 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_002728129 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454916 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454917 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454918 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_002728129   ⟸   XM_002728083
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008762805   ⟸   XM_008764583
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017460250   ⟸   XM_017604761
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017460249   ⟸   XM_017604760
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017460251   ⟸   XM_017604762
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017454917   ⟸   XM_017599428
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454916   ⟸   XM_017599427
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454918   ⟸   XM_017599429
- Peptide Label: isoform X3
- UniProtKB: D3ZJN7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003207   ⟸   ENSRNOT00000003207
Protein Domains
N-terminal Ras-GEF   Ras-GEF

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)
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:1562220 AgrOrtholog
Ensembl Genes ENSRNOG00000002345 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003207 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003207 UniProtKB/TrEMBL
Gene3D-CATH 1.10.840.10 UniProtKB/TrEMBL
InterPro Ras-like_GEF UniProtKB/TrEMBL
  Ras-like_Gua-exchang_fac_N UniProtKB/TrEMBL
  Ras_G-nucl-exch_fac_CS UniProtKB/TrEMBL
  Ras_GEF_dom UniProtKB/TrEMBL
  RASGEF_cat_dom_sf UniProtKB/TrEMBL
  RasGRF_CDC25 UniProtKB/TrEMBL
NCBI Gene 305185 ENTREZGENE
PANTHER PTHR23113 UniProtKB/TrEMBL
Pfam RasGEF UniProtKB/TrEMBL
  RasGEF_N UniProtKB/TrEMBL
PhenoGen Rasgef1b PhenoGen
PROSITE RASGEF UniProtKB/TrEMBL
  RASGEF_CAT UniProtKB/TrEMBL
  RASGEF_NTER UniProtKB/TrEMBL
SMART RasGEF UniProtKB/TrEMBL
  RasGEFN UniProtKB/TrEMBL
Superfamily-SCOP Ras_GEF UniProtKB/TrEMBL
UniProt D3ZJN7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-11 Rasgef1b  RasGEF domain family, member 1B  RGD1562220  similar to GPI-gamma 4; GPIgamma4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-02 RGD1562220  similar to GPI-gamma 4; GPIgamma4  LOC100361238  RasGEF domain family, member 1B  Data Merged 1643240 APPROVED
2010-05-05 LOC100361238  RasGEF domain family, member 1B      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1562220  similar to GPI-gamma 4; GPIgamma4   RGD1562220_predicted  similar to GPI-gamma 4; GPIgamma4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562220_predicted  similar to GPI-gamma 4; GPIgamma4 (predicted)  LOC305185  similar to GPI-gamma 4; GPIgamma4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC305185  similar to GPI-gamma 4; GPIgamma4      Symbol and Name status set to provisional 70820 PROVISIONAL