Arfrp1 (ADP-ribosylation factor related protein 1) - Rat Genome Database

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Gene: Arfrp1 (ADP-ribosylation factor related protein 1) Rattus norvegicus
Analyze
Symbol: Arfrp1
Name: ADP-ribosylation factor related protein 1
RGD ID: 621683
Description: Predicted to enable GTP binding activity and GTPase activity. Predicted to be involved in protein localization to Golgi apparatus; protein transport; and retrograde transport, endosome to Golgi. Predicted to act upstream of or within gastrulation. Predicted to be located in membrane and trans-Golgi network. Predicted to be active in Golgi apparatus. Orthologous to human ARFRP1 (ADP ribosylation factor related protein 1); INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ADP-ribosylation factor-related protein 1; ARF-related protein; ARF-related protein 1; ARP
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23168,466,351 - 168,473,960 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,466,496 - 168,473,914 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3172,848,386 - 172,854,336 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03181,807,489 - 181,813,437 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03178,468,912 - 178,474,832 (-)NCBIRnor_WKY
Rnor_6.03176,857,667 - 176,865,105 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,859,151 - 176,865,103 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,567,701 - 180,575,255 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,499,593 - 170,505,513 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13170,405,631 - 170,411,549 (-)NCBI
Celera3164,112,568 - 164,118,488 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
GTP binding  (IBA,IEA)
GTPase activity  (IBA,IEA)
protein binding  (ISO)

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. ARP is a plasma membrane-associated Ras-related GTPase with remote similarity to the family of ADP-ribosylation factors. Schurmann A, etal., J Biol Chem 1995 Dec 22;270(51):30657-63.
Additional References at PubMed
PMID:11839814   PMID:16129887   PMID:19224922  


Genomics

Comparative Map Data
Arfrp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23168,466,351 - 168,473,960 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,466,496 - 168,473,914 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3172,848,386 - 172,854,336 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03181,807,489 - 181,813,437 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03178,468,912 - 178,474,832 (-)NCBIRnor_WKY
Rnor_6.03176,857,667 - 176,865,105 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,859,151 - 176,865,103 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,567,701 - 180,575,255 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,499,593 - 170,505,513 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13170,405,631 - 170,411,549 (-)NCBI
Celera3164,112,568 - 164,118,488 (+)NCBICelera
Cytogenetic Map3q43NCBI
ARFRP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382063,698,647 - 63,707,976 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2063,698,642 - 63,708,025 (-)EnsemblGRCh38hg38GRCh38
GRCh372062,330,000 - 62,339,328 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362061,801,253 - 61,809,809 (-)NCBINCBI36Build 36hg18NCBI36
Build 342061,801,252 - 61,809,809NCBI
Celera2059,014,256 - 59,023,609 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2059,062,972 - 59,072,335 (-)NCBIHuRef
CHM1_12062,231,858 - 62,241,246 (-)NCBICHM1_1
T2T-CHM13v2.02065,518,953 - 65,528,283 (-)NCBIT2T-CHM13v2.0
Arfrp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,999,483 - 181,007,197 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2180,999,483 - 181,007,197 (-)EnsemblGRCm39 Ensembl
GRCm382181,357,690 - 181,365,404 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,357,690 - 181,365,404 (-)EnsemblGRCm38mm10GRCm38
MGSCv372181,092,395 - 181,100,109 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362181,287,240 - 181,294,768 (-)NCBIMGSCv36mm8
Celera2185,439,959 - 185,447,672 (-)NCBICelera
Cytogenetic Map2H4NCBI
Arfrp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528519,887 - 529,012 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528519,887 - 529,012 (+)NCBIChiLan1.0ChiLan1.0
ARFRP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12061,622,386 - 61,630,949 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,622,386 - 61,630,949 (-)Ensemblpanpan1.1panPan2
ARFRP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,250,442 - 47,256,637 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2447,251,705 - 47,256,614 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.02448,389,398 - 48,395,921 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2448,389,401 - 48,395,919 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12447,234,300 - 47,240,818 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02447,359,155 - 47,365,674 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02448,097,271 - 48,103,787 (-)NCBIUU_Cfam_GSD_1.0
Arfrp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,502,468 - 195,511,119 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651410,955,829 - 10,964,762 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493651410,956,111 - 10,964,756 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARFRP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,636,588 - 62,642,490 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,636,584 - 62,642,485 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ARFRP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12520,084 - 528,640 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2520,953 - 530,889 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605048,074,504 - 48,083,060 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arfrp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474129,346,684 - 29,355,739 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474129,346,678 - 29,356,199 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Arfrp1
22 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:154
Count of miRNA genes:122
Interacting mature miRNAs:133
Transcripts:ENSRNOT00000019038
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
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
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
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
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

Markers in Region
D3Hmgc18  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23168,469,073 - 168,469,357 (+)MAPPERmRatBN7.2
Rnor_6.03176,860,257 - 176,860,546NCBIRnor6.0
Rnor_5.03180,570,424 - 180,570,713UniSTSRnor5.0
RGSC_v3.43170,500,685 - 170,500,974UniSTSRGSC3.4
Celera3164,117,107 - 164,117,396UniSTS
Cytogenetic Map3q43UniSTS


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 40 11 8
Low 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019038   ⟹   ENSRNOP00000019038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,468,003 - 168,473,907 (-)Ensembl
Rnor_6.0 Ensembl3176,859,151 - 176,865,103 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115391   ⟹   ENSRNOP00000088928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,466,496 - 168,473,914 (-)Ensembl
RefSeq Acc Id: NM_053980   ⟹   NP_446432
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,467,982 - 168,473,896 (-)NCBI
Rnor_6.03176,859,165 - 176,865,085 (-)NCBI
Rnor_5.03180,567,701 - 180,575,255 (-)NCBI
RGSC_v3.43170,499,593 - 170,505,513 (-)RGD
Celera3164,112,568 - 164,118,488 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235718   ⟹   XP_006235780
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,466,479 - 168,473,960 (-)NCBI
Rnor_6.03176,857,667 - 176,865,088 (-)NCBI
Rnor_5.03180,567,701 - 180,575,255 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104123   ⟹   XP_038960051
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,466,479 - 168,473,908 (-)NCBI
RefSeq Acc Id: XM_039104124   ⟹   XP_038960052
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,467,900 - 168,473,908 (-)NCBI
RefSeq Acc Id: XM_039104126   ⟹   XP_038960054
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,466,479 - 168,473,728 (-)NCBI
RefSeq Acc Id: XR_005501753
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,466,351 - 168,473,908 (-)NCBI
RefSeq Acc Id: XR_591831
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,466,351 - 168,473,959 (-)NCBI
Rnor_6.03176,859,349 - 176,865,105 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_446432   ⟸   NM_053980
- UniProtKB: Q63055 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006235780   ⟸   XM_006235718
- Peptide Label: isoform X3
- UniProtKB: Q63055 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019038   ⟸   ENSRNOT00000019038
RefSeq Acc Id: XP_038960051   ⟸   XM_039104123
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038960054   ⟸   XM_039104126
- Peptide Label: isoform X3
- UniProtKB: Q63055 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038960052   ⟸   XM_039104124
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000088928   ⟸   ENSRNOT00000115391

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63055-F1-model_v2 AlphaFold Q63055 1-201 view protein structure

Transcriptome

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

Promoters
RGD ID:13692753
Promoter ID:EPDNEW_R3278
Type:initiation region
Name:Arfrp1_1
Description:ADP-ribosylation factor related protein 1
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_6.03176,865,098 - 176,865,158EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621683 AgrOrtholog
BioCyc Gene G2FUF-46290 BioCyc
Ensembl Genes ENSRNOG00000013992 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000019038 ENTREZGENE
  ENSRNOP00000019038.3 UniProtKB/TrEMBL
  ENSRNOP00000088928.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019038 ENTREZGENE
  ENSRNOT00000019038.6 UniProtKB/TrEMBL
  ENSRNOT00000115391 ENTREZGENE
  ENSRNOT00000115391.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTPase_ARF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTPase_ARF/SAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117051 UniProtKB/Swiss-Prot
NCBI Gene 117051 ENTREZGENE
PANTHER ADP-RIBOSYLATION FACTOR-RELATED PROTEIN 1 UniProtKB/Swiss-Prot
  ADP-RIBOSYLATION FACTOR-RELATED PROTEIN 1 UniProtKB/Swiss-Prot
  ADP-RIBOSYLATION FACTOR-RELATED PROTEIN 1 UniProtKB/TrEMBL
  ADP-RIBOSYLATION FACTOR-RELATED PROTEIN 1 UniProtKB/TrEMBL
Pfam Arf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arfrp1 PhenoGen
PRINTS RASTRNSFRMNG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ARF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ARF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RAB UniProtKB/Swiss-Prot
  SAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs small_GTP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A648_RAT UniProtKB/TrEMBL
  A0A8L2QAM9_RAT UniProtKB/TrEMBL
  ARFRP_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Arfrp1  ADP-ribosylation factor related protein 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Arfrp1  ADP-ribosylation factor related protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains six GTP-binding motifs 727256
gene_expression enriched in testis, thymus and adrenals 727256
gene_protein 201 amino acids 727256