Arhgap40 (Rho GTPase activating protein 40) - Rat Genome Database

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Gene: Arhgap40 (Rho GTPase activating protein 40) Rattus norvegicus
Analyze
Symbol: Arhgap40
Name: Rho GTPase activating protein 40
RGD ID: 1562428
Description: Predicted to enable GTPase activator activity. Predicted to be involved in regulation of actin filament polymerization and regulation of small GTPase mediated signal transduction. Predicted to be active in cytoplasm. Orthologous to human ARHGAP40 (Rho GTPase activating protein 40); INTERACTS WITH 17beta-estradiol; bisphenol A; trichloroethene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC296323; RGD1562428; rho GTPase-activating protein 40; similar to C20orf95
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83167,585,665 - 167,626,433 (+)NCBIGRCr8
mRatBN7.23147,165,781 - 147,206,552 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3147,165,729 - 147,207,203 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3150,998,123 - 151,038,744 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03159,497,426 - 159,538,053 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03157,232,799 - 157,273,462 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03154,996,685 - 155,042,199 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3154,996,750 - 155,041,816 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03160,564,782 - 160,610,205 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43149,229,094 - 149,277,444 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3145,866,334 - 145,905,540 (+)NCBICelera
Cytogenetic Map3q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Arhgap40
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83167,585,665 - 167,626,433 (+)NCBIGRCr8
mRatBN7.23147,165,781 - 147,206,552 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3147,165,729 - 147,207,203 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3150,998,123 - 151,038,744 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03159,497,426 - 159,538,053 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03157,232,799 - 157,273,462 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03154,996,685 - 155,042,199 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3154,996,750 - 155,041,816 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03160,564,782 - 160,610,205 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43149,229,094 - 149,277,444 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3145,866,334 - 145,905,540 (+)NCBICelera
Cytogenetic Map3q42NCBI
ARHGAP40
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382038,601,809 - 38,650,653 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2038,601,809 - 38,651,035 (+)EnsemblGRCh38hg38GRCh38
GRCh372037,230,452 - 37,279,296 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362036,685,438 - 36,762,920 (+)NCBINCBI36Build 36hg18NCBI36
Celera2033,941,365 - 33,990,115 (+)NCBICelera
Cytogenetic Map20q11.23NCBI
HuRef2033,967,419 - 34,016,092 (+)NCBIHuRef
CHM1_12037,134,779 - 37,183,507 (+)NCBICHM1_1
T2T-CHM13v2.02040,331,453 - 40,380,311 (+)NCBIT2T-CHM13v2.0
Arhgap40
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392158,354,682 - 158,392,786 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2158,354,716 - 158,392,682 (+)EnsemblGRCm39 Ensembl
GRCm382158,512,796 - 158,550,628 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2158,512,796 - 158,550,762 (+)EnsemblGRCm38mm10GRCm38
MGSCv372158,338,532 - 158,376,364 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362158,204,237 - 158,242,069 (+)NCBIMGSCv36mm8
Celera2164,435,056 - 164,483,561 (+)NCBICelera
Cytogenetic Map2H1NCBI
cM Map278.72NCBI
Arhgap40
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495544518,099,490 - 18,121,225 (-)NCBIChiLan1.0ChiLan1.0
ARHGAP40
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22144,327,071 - 44,375,987 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12044,320,169 - 44,369,085 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02034,926,329 - 34,975,079 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12036,034,643 - 36,083,390 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2036,034,643 - 36,083,390 (+)Ensemblpanpan1.1panPan2
ARHGAP40
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12427,047,119 - 27,074,211 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2426,692,596 - 26,719,660 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02427,743,317 - 27,770,450 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12427,017,025 - 27,044,131 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02427,125,357 - 27,152,492 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02427,613,396 - 27,640,501 (+)NCBIUU_Cfam_GSD_1.0
ARHGAP40
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1225,105,788 - 25,161,502 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl225,106,573 - 25,134,690 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605073,935,656 - 73,997,371 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Arhgap40
438 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:76
Interacting mature miRNAs:81
Transcripts:ENSRNOT00000040516
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145956084157309487Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3145956084161299569Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
7 1 8 66 9 14 5 6 60 18 58 34 43 14

Sequence


Ensembl Acc Id: ENSRNOT00000040516   ⟹   ENSRNOP00000049352
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3147,165,729 - 147,207,203 (+)Ensembl
Rnor_6.0 Ensembl3154,996,750 - 155,041,816 (+)Ensembl
RefSeq Acc Id: NM_001398688   ⟹   NP_001385617
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83167,585,665 - 167,626,433 (+)NCBI
mRatBN7.23147,165,781 - 147,206,552 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385617 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL96638 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000049352.5
Ensembl Acc Id: ENSRNOP00000049352   ⟸   ENSRNOT00000040516
RefSeq Acc Id: NP_001385617   ⟸   NM_001398688
- UniProtKB: D3ZWF9 (UniProtKB/TrEMBL)
Protein Domains
Rho-GAP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZWF9-F1-model_v2 AlphaFold D3ZWF9 1-672 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562428 AgrOrtholog
BioCyc Gene G2FUF-47015 BioCyc
Ensembl Genes ENSRNOG00000015359 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040516.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.555.10 UniProtKB/TrEMBL
InterPro Rho_GTPase_activation_prot UniProtKB/TrEMBL
  RhoGAP_dom UniProtKB/TrEMBL
NCBI Gene 296323 ENTREZGENE
PANTHER RHO GTPASE ACTIVATING PROTEIN 18,19-RELATED UniProtKB/TrEMBL
  RHO GTPASE-ACTIVATING PROTEIN 40 UniProtKB/TrEMBL
Pfam RhoGAP UniProtKB/TrEMBL
PhenoGen Arhgap40 PhenoGen
PROSITE RHOGAP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000015359 RatGTEx
SMART RhoGAP UniProtKB/TrEMBL
Superfamily-SCOP Rho_GAP UniProtKB/TrEMBL
UniProt A6JWX2_RAT UniProtKB/TrEMBL
  D3ZWF9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-05-25 Arhgap40  Rho GTPase activating protein 40   RGD1562428  similar to C20orf95  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1562428  similar to C20orf95   RGD1562428_predicted  similar to C20orf95 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562428_predicted  similar to C20orf95 (predicted)  LOC296323  similar to C20orf95  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC296323  similar to C20orf95      Symbol and Name status set to provisional 70820 PROVISIONAL