Arhgef6 (Rac/Cdc42 guanine nucleotide exchange factor 6) - Rat Genome Database

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Gene: Arhgef6 (Rac/Cdc42 guanine nucleotide exchange factor 6) Rattus norvegicus
Analyze
Symbol: Arhgef6
Name: Rac/Cdc42 guanine nucleotide exchange factor 6
RGD ID: 1359674
Description: Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in lamellipodium assembly. Predicted to be located in cell-cell junction and lamellipodium. Human ortholog(s) of this gene implicated in intellectual disability and non-syndromic X-linked intellectual disability 46. Orthologous to human ARHGEF6 (Rac/Cdc42 guanine nucleotide exchange factor 6); PARTICIPATES IN ceramide signaling pathway; pancreatic cancer pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Rac/Cdc42 guanine nucleotide exchange factor (GEF) 6; rho guanine nucleotide exchange factor 6
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
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX159,723,866 - 159,841,072 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X159,722,031 - 159,841,344 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X154,351,133 - 154,467,649 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X141,946,362 - 142,068,557 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X142,019,794 - 142,141,990 (-)NCBI
CeleraX143,180,944 - 143,297,823 (-)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:16641100   PMID:18325335   PMID:19261846   PMID:22554054   PMID:23793062   PMID:25450678  


Genomics

Comparative Map Data
Arhgef6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX159,723,866 - 159,841,072 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X159,722,031 - 159,841,344 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X154,351,133 - 154,467,649 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X141,946,362 - 142,068,557 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X142,019,794 - 142,141,990 (-)NCBI
CeleraX143,180,944 - 143,297,823 (-)NCBICelera
Cytogenetic MapXq37NCBI
ARHGEF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX136,665,547 - 136,780,932 (-)EnsemblGRCh38hg38GRCh38
GRCh38X136,665,547 - 136,780,945 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X135,747,709 - 135,863,091 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X135,575,375 - 135,691,169 (-)NCBINCBI36hg18NCBI36
Build 34X135,473,232 - 135,589,023NCBI
CeleraX136,111,384 - 136,227,182 (-)NCBI
Cytogenetic MapXq26.3NCBI
HuRefX125,018,703 - 125,134,374 (-)NCBIHuRef
CHM1_1X135,659,375 - 135,775,269 (-)NCBICHM1_1
Arhgef6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X56,276,845 - 56,384,119 (-)NCBIGRCm39mm39
GRCm39 EnsemblX56,276,845 - 56,384,089 (-)Ensembl
GRCm38X57,231,485 - 57,338,758 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX57,231,485 - 57,338,729 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X54,484,662 - 54,591,906 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X53,578,271 - 53,685,513 (-)NCBImm8
CeleraX43,709,095 - 43,814,976 (-)NCBICelera
Cytogenetic MapXA6NCBI
Arhgef6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554898,360,072 - 8,459,377 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554898,360,027 - 8,459,309 (+)NCBIChiLan1.0ChiLan1.0
ARHGEF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X136,060,652 - 136,176,571 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX136,058,879 - 136,176,110 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X125,794,158 - 125,909,809 (-)NCBIMhudiblu_PPA_v0panPan3
ARHGEF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X107,031,586 - 107,133,402 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX107,034,118 - 107,133,082 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX92,853,143 - 92,954,592 (-)NCBI
ROS_Cfam_1.0X109,011,566 - 109,112,628 (-)NCBI
UMICH_Zoey_3.1X106,152,309 - 106,253,330 (-)NCBI
UNSW_CanFamBas_1.0X108,343,657 - 108,445,068 (-)NCBI
UU_Cfam_GSD_1.0X107,985,467 - 108,087,145 (-)NCBI
Arhgef6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X105,016,252 - 105,126,029 (-)NCBI
SpeTri2.0NW_00493651310,488,525 - 10,598,366 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARHGEF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX111,796,488 - 111,916,733 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X111,796,485 - 111,917,195 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X127,658,249 - 127,763,452 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARHGEF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X111,672,701 - 111,793,597 (-)NCBI
ChlSab1.1 EnsemblX111,672,713 - 111,792,856 (-)Ensembl
Vero_WHO_p1.0NW_02366606549,359,175 - 49,486,195 (-)NCBI
Arhgef6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480810,320,388 - 10,464,081 (+)NCBI

Position Markers
DXRat141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X135,183,402 - 135,183,610 (+)MAPPERmRatBN7.2
Rnor_6.0X159,760,012 - 159,760,219NCBIRnor6.0
Rnor_5.0X154,385,788 - 154,385,995UniSTSRnor5.0
RGSC_v3.4X141,982,743 - 141,982,950RGDRGSC3.4
RGSC_v3.4X141,982,744 - 141,982,951UniSTSRGSC3.4
RGSC_v3.1X142,056,176 - 142,056,383RGD
CeleraX143,216,854 - 143,217,061UniSTS
SHRSP x BN MapX44.63UniSTS
SHRSP x BN MapX44.63RGD
Cytogenetic MapXq36UniSTS
RH144315  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X135,186,611 - 135,186,721 (+)MAPPERmRatBN7.2
Rnor_6.0X159,763,221 - 159,763,330NCBIRnor6.0
Rnor_5.0X154,388,997 - 154,389,106UniSTSRnor5.0
RGSC_v3.4X141,985,953 - 141,986,062UniSTSRGSC3.4
CeleraX143,220,057 - 143,220,166UniSTS
RH 3.4 MapX958.1UniSTS
Cytogenetic MapXq36UniSTS
px-17e5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X135,154,816 - 135,154,940 (+)MAPPERmRatBN7.2
Rnor_6.0X159,731,400 - 159,731,523NCBIRnor6.0
Rnor_5.0X154,357,999 - 154,358,122UniSTSRnor5.0
RGSC_v3.4X141,954,095 - 141,954,218UniSTSRGSC3.4
CeleraX143,188,244 - 143,188,367UniSTS
Cytogenetic MapXq36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X134627816159970021Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118715462159970021Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:51
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000001158
Prediction methods:Miranda, Pita, 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 2 32 16 19 8 11 2 25 11 8
Low 1 11 41 41 41 74 33 16
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001158   ⟹   ENSRNOP00000001158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX159,723,866 - 159,841,072 (-)Ensembl
RefSeq Acc Id: NM_001005565   ⟹   NP_001005565
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,147,481 - 135,264,206 (-)NCBI
Rnor_6.0X159,724,065 - 159,840,804 (-)NCBI
Rnor_5.0X154,351,133 - 154,467,649 (-)NCBI
RGSC_v3.4X141,946,362 - 142,068,557 (-)RGD
CeleraX143,180,944 - 143,297,823 (-)RGD
Sequence:
RefSeq Acc Id: XM_008773651   ⟹   XP_008771873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
Rnor_6.0X159,722,031 - 159,841,343 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773652   ⟹   XP_008771874
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
Rnor_6.0X159,722,031 - 159,841,344 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773653   ⟹   XP_008771875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
Rnor_6.0X159,722,031 - 159,841,341 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773654   ⟹   XP_008771876
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,147,481 - 135,252,810 (-)NCBI
Rnor_6.0X159,724,065 - 159,829,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602114   ⟹   XP_017457603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,147,481 - 135,253,556 (-)NCBI
Rnor_6.0X159,724,065 - 159,830,107 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099906   ⟹   XP_038955834
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
RefSeq Acc Id: XM_039099907   ⟹   XP_038955835
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
RefSeq Acc Id: XM_039099908   ⟹   XP_038955836
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,264,636 (-)NCBI
RefSeq Acc Id: XM_039099909   ⟹   XP_038955837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,147,481 - 135,225,668 (-)NCBI
RefSeq Acc Id: XM_039099910   ⟹   XP_038955838
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,147,481 - 135,252,810 (-)NCBI
RefSeq Acc Id: XM_039099911   ⟹   XP_038955839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X135,145,447 - 135,197,425 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001005565   ⟸   NM_001005565
- UniProtKB: Q5XXR3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008771874   ⟸   XM_008773652
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008771873   ⟸   XM_008773651
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771875   ⟸   XM_008773653
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008771876   ⟸   XM_008773654
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017457603   ⟸   XM_017602114
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: ENSRNOP00000001158   ⟸   ENSRNOT00000001158
RefSeq Acc Id: XP_038955836   ⟸   XM_039099908
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038955835   ⟸   XM_039099907
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038955834   ⟸   XM_039099906
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955839   ⟸   XM_039099911
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038955838   ⟸   XM_039099910
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038955837   ⟸   XM_039099909
- Peptide Label: isoform X7
Protein Domains
Calponin-homology (CH)   DH   PH   SH3

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)
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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
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:1359674 AgrOrtholog
Ensembl Genes ENSRNOG00000000869 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001158 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001158 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.20.900.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AlphaPIX_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DBL_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DH-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDS_CDC24_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GEF_CC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363509 UniProtKB/Swiss-Prot
NCBI Gene 363509 ENTREZGENE
Pfam betaPIX_CC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00169 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00307 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RhoGEF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arhgef6 PhenoGen
PRINTS SH3DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE DH_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DH_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50021 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART RhoGEF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00033 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47576 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48065 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt ARHG6_RAT UniProtKB/Swiss-Prot
  D3ZWQ8_RAT UniProtKB/TrEMBL
  Q5XXR3 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-19 Arhgef6  Rac/Cdc42 guanine nucleotide exchange factor 6  Arhgef6  Rac/Cdc42 guanine nucleotide exchange factor (GEF) 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-03 Arhgef6  Rac/Cdc42 guanine nucleotide exchange factor (GEF) 6  arhgef6  rac/cdc42 guanine nucleotide exchange factor 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 arhgef6  rac/cdc42 guanine nucleotide exchange factor 6      Symbol and Name status set to provisional 70820 PROVISIONAL