Arfgap1 (ADP-ribosylation factor GTPase activating protein 1) - Rat Genome Database

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Gene: Arfgap1 (ADP-ribosylation factor GTPase activating protein 1) Rattus norvegicus
Analyze
Symbol: Arfgap1
Name: ADP-ribosylation factor GTPase activating protein 1
RGD ID: 708452
Description: Predicted to enable GTPase activator activity. Predicted to be involved in regulation of ARF protein signal transduction and regulation of endocytosis. Located in Golgi membrane. Orthologous to human ARFGAP1 (ADP ribosylation factor GTPase activating protein 1); PARTICIPATES IN Arf family mediated signaling pathway; endocytosis pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: ADP-ribosylation factor 1 GTPase activating protein; ADP-ribosylation factor 1 GTPase-activating protein; ADP-ribosylation factor GTPase-activating protein 1; ARF GAP 1; Arf GAP1; ARF1 GAP; ARF1-directed GTPase-activating protein; Arf1gap
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
mRatBN7.23168,084,560 - 168,099,948 (+)NCBI
Rnor_6.0 Ensembl3176,475,893 - 176,489,925 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03176,475,847 - 176,490,642 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03180,185,674 - 180,201,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,075,313 - 170,100,744 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13169,981,348 - 170,006,780 (+)NCBI
Celera3164,486,283 - 164,500,316 (-)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
Golgi membrane  (IBA,IDA)
postsynaptic density  (ISO)
synapse  (IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8889548   PMID:9405360   PMID:9733781   PMID:10102276   PMID:11748249   PMID:16316994   PMID:16903783   PMID:17114649   PMID:17253781   PMID:19015319   PMID:19020038   PMID:20211604  
PMID:21499258   PMID:22423108   PMID:24792215   PMID:29476059  


Genomics

Comparative Map Data
Arfgap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23168,084,560 - 168,099,948 (+)NCBI
Rnor_6.0 Ensembl3176,475,893 - 176,489,925 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03176,475,847 - 176,490,642 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03180,185,674 - 180,201,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,075,313 - 170,100,744 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13169,981,348 - 170,006,780 (+)NCBI
Celera3164,486,283 - 164,500,316 (-)NCBICelera
Cytogenetic Map3q43NCBI
ARFGAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2063,272,785 - 63,289,790 (+)EnsemblGRCh38hg38GRCh38
GRCh382063,272,813 - 63,289,790 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372061,904,165 - 61,921,142 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362061,374,610 - 61,391,587 (+)NCBINCBI36hg18NCBI36
Build 342061,374,609 - 61,391,587NCBI
Celera2058,581,641 - 58,598,618 (+)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2058,629,588 - 58,646,600 (+)NCBIHuRef
CHM1_12061,805,186 - 61,822,225 (+)NCBICHM1_1
Arfgap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,608,290 - 180,624,319 (+)NCBIGRCm39mm39
GRCm39 Ensembl2180,609,018 - 180,624,319 (+)Ensembl
GRCm382180,967,225 - 180,982,526 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2180,967,225 - 180,982,526 (+)EnsemblGRCm38mm10GRCm38
MGSCv372180,701,930 - 180,717,229 (+)NCBIGRCm37mm9NCBIm37
MGSCv362180,896,677 - 180,911,850 (+)NCBImm8
Celera2185,053,714 - 185,069,012 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.53NCBI
Arfgap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528877,073 - 893,484 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955528878,837 - 893,427 (-)NCBIChiLan1.0ChiLan1.0
ARFGAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12061,197,583 - 61,214,635 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,197,583 - 61,214,635 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02059,656,731 - 59,674,802 (+)NCBIMhudiblu_PPA_v0panPan3
ARFGAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12446,983,944 - 46,995,552 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2446,983,939 - 46,995,548 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,167,782 - 46,179,384 (+)NCBI
ROS_Cfam_1.02447,937,705 - 47,949,300 (+)NCBI
UMICH_Zoey_3.12446,952,991 - 46,964,587 (+)NCBI
UNSW_CanFamBas_1.02447,077,281 - 47,088,873 (+)NCBI
UU_Cfam_GSD_1.02447,833,394 - 47,844,998 (+)NCBI
Arfgap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,174,022 - 195,187,226 (+)NCBI
SpeTri2.0NW_00493651410,627,700 - 10,641,157 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARFGAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11762,380,060 - 62,391,836 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ARFGAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12918,508 - 936,175 (-)NCBI
ChlSab1.1 Ensembl2917,479 - 936,138 (-)Ensembl
Vero_WHO_p1.0NW_02366605048,561,151 - 48,579,371 (-)NCBI
Arfgap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474128,971,320 - 28,986,699 (+)NCBI

Position Markers
AW534395  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,094,465 - 168,094,634 (+)MAPPER
Rnor_6.03176,485,716 - 176,485,884NCBIRnor6.0
Rnor_5.03180,195,543 - 180,195,711UniSTSRnor5.0
RGSC_v3.43170,085,136 - 170,085,304UniSTSRGSC3.4
Celera3164,490,324 - 164,490,492UniSTS
RH 3.4 Map31532.0UniSTS
Cytogenetic Map3q43UniSTS
RH137730  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,092,137 - 168,092,316 (+)MAPPER
Rnor_6.03176,483,388 - 176,483,566NCBIRnor6.0
Rnor_5.03180,193,215 - 180,193,393UniSTSRnor5.0
RGSC_v3.43170,082,808 - 170,082,986UniSTSRGSC3.4
Celera3164,492,642 - 164,492,820UniSTS
RH 3.4 Map31531.1UniSTS
Cytogenetic Map3q43UniSTS
RH138664  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,099,751 - 168,099,899 (+)MAPPER
Rnor_6.03176,491,002 - 176,491,149NCBIRnor6.0
Rnor_5.03180,200,829 - 180,200,976UniSTSRnor5.0
RGSC_v3.43170,101,821 - 170,101,968UniSTSRGSC3.4
Celera3164,485,059 - 164,485,206UniSTS
RH 3.4 Map31530.8UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
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)345406058177699992Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3153918022177699992Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3170428815177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3153412455177699992Rat
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)3148034701177699992Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:710
Count of miRNA genes:209
Interacting mature miRNAs:245
Transcripts:ENSRNOT00000013900, ENSRNOT00000055038
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_145090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501775 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501778 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501779 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC135298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC070895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ199400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB767714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK838782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV120035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ167810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ167811 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U35776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013900   ⟹   ENSRNOP00000013900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3176,475,893 - 176,489,925 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000055038   ⟹   ENSRNOP00000051916
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3176,479,335 - 176,489,594 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082267   ⟹   ENSRNOP00000073451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3176,479,335 - 176,489,594 (+)Ensembl
RefSeq Acc Id: NM_145090   ⟹   NP_659558
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,642 - 168,098,675 (+)NCBI
Rnor_6.03176,475,893 - 176,489,925 (+)NCBI
Rnor_5.03180,185,674 - 180,201,025 (+)NCBI
RGSC_v3.43170,075,313 - 170,100,744 (+)RGD
Celera3164,486,283 - 164,500,316 (-)RGD
Sequence:
RefSeq Acc Id: XM_006235731   ⟹   XP_006235793
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,561 - 168,099,948 (+)NCBI
Rnor_6.03176,475,855 - 176,490,642 (+)NCBI
Rnor_5.03180,185,674 - 180,201,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235732   ⟹   XP_006235794
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,560 - 168,099,948 (+)NCBI
Rnor_6.03176,475,847 - 176,490,642 (+)NCBI
Rnor_5.03180,185,674 - 180,201,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235734   ⟹   XP_006235796
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
Rnor_6.03176,475,859 - 176,490,642 (+)NCBI
Rnor_5.03180,185,674 - 180,201,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591464   ⟹   XP_017446953
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
Rnor_6.03176,475,859 - 176,490,642 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104259   ⟹   XP_038960187
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,563 - 168,099,948 (+)NCBI
RefSeq Acc Id: XM_039104260   ⟹   XP_038960188
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
RefSeq Acc Id: XM_039104261   ⟹   XP_038960189
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
RefSeq Acc Id: XM_039104262   ⟹   XP_038960190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
RefSeq Acc Id: XM_039104263   ⟹   XP_038960191
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,099,948 (+)NCBI
RefSeq Acc Id: XR_005501775
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,098,142 (+)NCBI
RefSeq Acc Id: XR_005501776
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,098,142 (+)NCBI
RefSeq Acc Id: XR_005501777
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,098,142 (+)NCBI
RefSeq Acc Id: XR_005501778
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,098,142 (+)NCBI
RefSeq Acc Id: XR_005501779
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,084,616 - 168,098,142 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_659558   ⟸   NM_145090
- UniProtKB: Q62848 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006235794   ⟸   XM_006235732
- Peptide Label: isoform X1
- UniProtKB: Q3S4A4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235793   ⟸   XM_006235731
- Peptide Label: isoform X1
- UniProtKB: Q3S4A4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235796   ⟸   XM_006235734
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017446953   ⟸   XM_017591464
- Peptide Label: isoform X2
- UniProtKB: Q62848 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051916   ⟸   ENSRNOT00000055038
RefSeq Acc Id: ENSRNOP00000073451   ⟸   ENSRNOT00000082267
RefSeq Acc Id: ENSRNOP00000013900   ⟸   ENSRNOT00000013900
RefSeq Acc Id: XP_038960187   ⟸   XM_039104259
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960188   ⟸   XM_039104260
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038960189   ⟸   XM_039104261
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960190   ⟸   XM_039104262
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038960191   ⟸   XM_039104263
- Peptide Label: isoform X7
Protein Domains
Arf-GAP

Transcriptome

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

Promoters
RGD ID:13692744
Promoter ID:EPDNEW_R3269
Type:initiation region
Name:Arfgap1_1
Description:ADP-ribosylation factor GTPase activating protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3270  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03176,475,865 - 176,475,925EPDNEW
RGD ID:13692745
Promoter ID:EPDNEW_R3270
Type:initiation region
Name:Arfgap1_2
Description:ADP-ribosylation factor GTPase activating protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3269  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03176,476,333 - 176,476,393EPDNEW

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)
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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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/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
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:708452 AgrOrtholog
Ensembl Genes ENSRNOG00000043150 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013900 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000051916 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073451 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013900 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000055038 UniProtKB/TrEMBL
  ENSRNOT00000082267 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.160 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7099840 IMAGE-MGC_LOAD
InterPro ARFGAP/RecO UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ArfGAP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ArfGAP_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:246310 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91464 IMAGE-MGC_LOAD
NCBI Gene 246310 ENTREZGENE
Pfam ArfGap UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arfgap1 PhenoGen
PRINTS REVINTRACTNG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ARFGAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ArfGap UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57863 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt ARFG1_RAT UniProtKB/Swiss-Prot
  Q3S4A4 ENTREZGENE, UniProtKB/TrEMBL
  Q3S4A5_RAT UniProtKB/TrEMBL
  Q62848 ENTREZGENE
  Q6IRJ8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Arfgap1  ADP-ribosylation factor GTPase activating protein 1    ADP-ribosylation factor 1 GTPase activating protein  Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to Golgi membranes 1299451