Arhgap28 (Rho GTPase activating protein 28) - Rat Genome Database

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Gene: Arhgap28 (Rho GTPase activating protein 28) Rattus norvegicus
Analyze
Symbol: Arhgap28
Name: Rho GTPase activating protein 28
RGD ID: 1559882
Description: Predicted to have GTPase activator activity. Predicted to be involved in negative regulation of GTP binding activity; regulation of actin filament organization; and regulation of small GTPase mediated signal transduction. Predicted to localize to cytoplasm. Orthologous to human ARHGAP28 (Rho GTPase activating protein 28); INTERACTS WITH 1,2-dimethylhydrazine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC301709; RGD1559882; rho GTPase-activating protein 28; similar to hypothetical protein E130310N06
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
mRatBN7.29107,832,584 - 107,998,030 (-)NCBI
Rnor_6.0 Ensembl9116,058,610 - 116,222,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.09116,057,229 - 116,222,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.09115,545,230 - 115,711,949 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49106,996,258 - 107,162,388 (-)NCBIRGSC3.4rn4RGSC3.4
Celera9104,992,570 - 105,156,417 (-)NCBICelera
Cytogenetic Map9q38NCBI
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
cytoplasm  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:25211221  


Genomics

Comparative Map Data
Arhgap28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29107,832,584 - 107,998,030 (-)NCBI
Rnor_6.0 Ensembl9116,058,610 - 116,222,440 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.09116,057,229 - 116,222,440 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.09115,545,230 - 115,711,949 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49106,996,258 - 107,162,388 (-)NCBIRGSC3.4rn4RGSC3.4
Celera9104,992,570 - 105,156,417 (-)NCBICelera
Cytogenetic Map9q38NCBI
ARHGAP28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl186,729,718 - 6,915,716 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl186,729,716 - 6,915,716 (+)EnsemblGRCh38hg38GRCh38
GRCh38186,729,716 - 6,915,716 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37186,729,715 - 6,915,715 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36186,824,484 - 6,905,715 (+)NCBINCBI36hg18NCBI36
Celera186,719,871 - 6,801,101 (+)NCBI
Cytogenetic Map18p11.31NCBI
HuRef186,797,814 - 6,879,176 (+)NCBIHuRef
CHM1_1186,834,188 - 6,915,740 (+)NCBICHM1_1
Arhgap28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391768,149,701 - 68,311,185 (-)NCBIGRCm39mm39
GRCm39 Ensembl1768,149,708 - 68,311,115 (-)Ensembl
GRCm381767,842,706 - 68,004,197 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1767,842,713 - 68,004,120 (-)EnsemblGRCm38mm10GRCm38
MGSCv371768,192,046 - 68,353,448 (-)NCBIGRCm37mm9NCBIm37
MGSCv361767,747,658 - 67,909,003 (-)NCBImm8
Celera1772,140,076 - 72,305,462 (-)NCBICelera
Cytogenetic Map17E1.1- E1.2NCBI
Arhgap28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554024,418,201 - 4,490,146 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554024,417,978 - 4,531,683 (-)NCBIChiLan1.0ChiLan1.0
ARHGAP28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1189,686,547 - 9,870,372 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl189,690,107 - 9,775,270 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0187,366,986 - 7,548,782 (-)NCBIMhudiblu_PPA_v0panPan3
ARHGAP28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1773,023,681 - 73,260,093 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl773,055,118 - 73,257,375 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha772,418,137 - 72,667,855 (+)NCBI
ROS_Cfam_1.0773,075,625 - 73,312,589 (+)NCBI
UMICH_Zoey_3.1772,779,563 - 73,016,360 (+)NCBI
UNSW_CanFamBas_1.0772,807,839 - 73,044,981 (+)NCBI
UU_Cfam_GSD_1.0773,102,267 - 73,339,846 (+)NCBI
Arhgap28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494469,583,693 - 69,796,899 (+)NCBI
SpeTri2.0NW_004936670186,141 - 315,613 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARHGAP28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6100,493,261 - 100,655,708 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16100,494,385 - 100,681,008 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2693,656,579 - 93,818,607 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARHGAP28
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11865,783,800 - 65,971,262 (+)NCBI
ChlSab1.1 Ensembl1865,808,866 - 65,973,180 (+)Ensembl
Arhgap28
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477016,179,225 - 16,343,299 (+)NCBI

Position Markers
D9Mit8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,948,703 - 107,948,903 (+)MAPPER
Rnor_6.09116,172,617 - 116,172,816NCBIRnor6.0
Rnor_5.09115,662,126 - 115,662,325UniSTSRnor5.0
RGSC_v3.49107,112,381 - 107,112,580RGDRGSC3.4
RGSC_v3.49107,112,382 - 107,112,581UniSTSRGSC3.4
RGSC_v3.19107,321,861 - 107,322,060RGD
Celera9105,107,243 - 105,107,442UniSTS
RH 2.0 Map91068.6RGD
Cytogenetic Map9q37UniSTS
D9Mgh7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,973,446 - 107,973,690 (+)MAPPER
Rnor_6.09116,197,343 - 116,197,586NCBIRnor6.0
Rnor_5.09115,686,852 - 115,687,095UniSTSRnor5.0
RGSC_v3.49107,137,947 - 107,138,191RGDRGSC3.4
RGSC_v3.49107,137,948 - 107,138,191UniSTSRGSC3.4
RGSC_v3.19107,347,427 - 107,347,671RGD
Celera9105,131,981 - 105,132,224UniSTS
Cytogenetic Map9q37UniSTS
D9Rat103  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,915,537 - 107,915,739 (+)MAPPER
Rnor_6.09116,140,301 - 116,140,502NCBIRnor6.0
Rnor_5.09115,629,810 - 115,630,011UniSTSRnor5.0
RGSC_v3.49107,079,208 - 107,079,410RGDRGSC3.4
RGSC_v3.49107,079,209 - 107,079,410UniSTSRGSC3.4
RGSC_v3.19107,288,688 - 107,288,890RGD
Celera9105,074,876 - 105,075,077UniSTS
FHH x ACI Map985.77RGD
FHH x ACI Map985.77UniSTS
Cytogenetic Map9q37UniSTS
D9Got141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,870,241 - 107,870,403 (+)MAPPER
Rnor_6.09116,095,029 - 116,095,190NCBIRnor6.0
Rnor_5.09115,584,538 - 115,584,699UniSTSRnor5.0
RGSC_v3.49107,033,912 - 107,034,074RGDRGSC3.4
RGSC_v3.49107,033,913 - 107,034,074UniSTSRGSC3.4
RGSC_v3.19107,243,392 - 107,243,554RGD
Celera9105,030,225 - 105,030,386UniSTS
RH 2.0 Map91084.7RGD
Cytogenetic Map9q37UniSTS
AB072742  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,850,212 - 107,850,358 (+)MAPPER
Rnor_6.09116,075,000 - 116,075,145NCBIRnor6.0
Rnor_5.09115,564,509 - 115,564,654UniSTSRnor5.0
RGSC_v3.49107,013,884 - 107,014,029UniSTSRGSC3.4
Celera9105,010,196 - 105,010,341UniSTS
Cytogenetic Map9q37UniSTS
AA891588  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,833,459 - 107,833,602 (+)MAPPER
Rnor_6.09116,058,105 - 116,058,247NCBIRnor6.0
Rnor_5.09115,547,614 - 115,547,756UniSTSRnor5.0
RGSC_v3.49106,997,134 - 106,997,276UniSTSRGSC3.4
Celera9104,993,446 - 104,993,588UniSTS
Cytogenetic Map9q37UniSTS
BF397576  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,836,365 - 107,836,603 (+)MAPPER
Rnor_6.09116,061,011 - 116,061,248NCBIRnor6.0
Rnor_5.09115,550,520 - 115,550,757UniSTSRnor5.0
RGSC_v3.49107,000,040 - 107,000,277UniSTSRGSC3.4
Celera9104,996,352 - 104,996,589UniSTS
Cytogenetic Map9q37UniSTS
BE120317  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29107,971,721 - 107,971,919 (+)MAPPER
Rnor_6.09116,195,618 - 116,195,815NCBIRnor6.0
Rnor_5.09115,685,127 - 115,685,324UniSTSRnor5.0
RGSC_v3.49107,136,223 - 107,136,420UniSTSRGSC3.4
Celera9105,130,256 - 105,130,453UniSTS
Cytogenetic Map9q37UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)990024661119983851Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)981411073119983851Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:218
Count of miRNA genes:156
Interacting mature miRNAs:191
Transcripts:ENSRNOT00000067900
Prediction methods: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 20 11 6 6 1 1 11 22 28 5 1
Low 3 23 39 28 19 28 7 10 63 13 10 6 7
Below cutoff 7 7 7 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067900   ⟹   ENSRNOP00000063588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9116,058,610 - 116,222,440 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090111   ⟹   ENSRNOP00000070038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9116,069,452 - 116,222,374 (-)Ensembl
RefSeq Acc Id: NM_001191815   ⟹   NP_001178744
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29107,832,584 - 107,997,900 (-)NCBI
Rnor_6.09116,057,229 - 116,222,440 (-)NCBI
Rnor_5.09115,545,230 - 115,711,949 (-)NCBI
Celera9104,992,570 - 105,156,417 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245626   ⟹   XP_006245688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29107,833,962 - 107,940,635 (-)NCBI
Rnor_6.09116,058,484 - 116,165,357 (-)NCBI
Rnor_5.09115,545,230 - 115,711,949 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245627   ⟹   XP_006245689
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09116,058,484 - 116,165,357 (-)NCBI
Rnor_5.09115,545,230 - 115,711,949 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245628   ⟹   XP_006245690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09116,058,484 - 116,128,716 (-)NCBI
Rnor_5.09115,545,230 - 115,711,949 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767424   ⟹   XP_008765646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09116,058,484 - 116,189,696 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039083430   ⟹   XP_038939358
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29107,833,839 - 107,998,030 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001178744 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245688 (Get FASTA)   NCBI Sequence Viewer  
  XP_038939358 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL90915 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001178744   ⟸   NM_001191815
- Sequence:
RefSeq Acc Id: XP_006245689   ⟸   XM_006245627
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006245688   ⟸   XM_006245626
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245690   ⟸   XM_006245628
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008765646   ⟸   XM_008767424
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000070038   ⟸   ENSRNOT00000090111
RefSeq Acc Id: ENSRNOP00000063588   ⟸   ENSRNOT00000067900
RefSeq Acc Id: XP_038939358   ⟸   XM_039083430
- Peptide Label: isoform X1
Protein Domains
Rho-GAP

Transcriptome

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

Promoters
RGD ID:13696907
Promoter ID:EPDNEW_R7432
Type:initiation region
Name:Arhgap28_1
Description:Rho GTPase activating protein 28
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_6.09116,222,532 - 116,222,592EPDNEW

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)
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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
LN/MavRrrc (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
M520/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
MHS/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
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:1559882 AgrOrtholog
Ensembl Genes ENSRNOG00000017065 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063588 UniProtKB/TrEMBL
  ENSRNOP00000070038 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067900 UniProtKB/TrEMBL
  ENSRNOT00000090111 UniProtKB/TrEMBL
Gene3D-CATH 1.10.555.10 UniProtKB/TrEMBL
InterPro Rho_GTPase_activation_prot UniProtKB/TrEMBL
  RhoGAP_dom UniProtKB/TrEMBL
NCBI Gene 301709 ENTREZGENE
Pfam RhoGAP UniProtKB/TrEMBL
PhenoGen Arhgap28 PhenoGen
PROSITE RHOGAP UniProtKB/TrEMBL
SMART RhoGAP UniProtKB/TrEMBL
Superfamily-SCOP Rho_GAP UniProtKB/TrEMBL
UniProt A0A0G2JWW2_RAT UniProtKB/TrEMBL
  F1M332_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-28 Arhgap28  Rho GTPase activating protein 28  RGD1559882_predicted  similar to hypothetical protein E130310N06 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1559882_predicted  similar to hypothetical protein E130310N06 (predicted)  LOC301709  similar to hypothetical protein E130310N06  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC301709  similar to hypothetical protein E130310N06      Symbol and Name status set to provisional 70820 PROVISIONAL