Rp2 (RP2 activator of ARL3 GTPase) - Rat Genome Database

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Gene: Rp2 (RP2 activator of ARL3 GTPase) Rattus norvegicus
Analyze
Symbol: Rp2
Name: RP2 activator of ARL3 GTPase
RGD ID: 1565124
Description: Predicted to enable GTPase activator activity and magnesium ion binding activity. Predicted to be involved in post-Golgi vesicle-mediated transport. Predicted to be located in several cellular components, including Golgi apparatus; microtubule organizing center; and nuclear body. Predicted to be active in cilium and periciliary membrane compartment. Human ortholog(s) of this gene implicated in retinitis pigmentosa and retinitis pigmentosa 2. Orthologous to human RP2 (RP2 activator of ARL3 GTPase); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC367714; protein XRP2; retinitis pigmentosa 2 (X-linked recessive); retinitis pigmentosa 2 homolog; retinitis pigmentosa 2 homolog (human); RGD1565124; RP2, ARL3 GTPase activating protein; Rp2h; similar to mouse Rp2 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X4,426,071 - 4,470,200 (-)NCBIGRCr8
mRatBN7.2X1,872,582 - 1,916,704 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX1,873,306 - 1,916,688 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX1,898,997 - 1,949,550 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X5,374,718 - 5,425,272 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X1,682,649 - 1,726,741 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X2,066,298 - 2,116,661 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX2,064,486 - 2,116,656 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X2,863,068 - 2,908,525 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX2,417,995 - 2,461,610 (-)NCBICelera
Cytogenetic MapXq11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. X-linked retinitis pigmentosa: mutation spectrum of the RPGR and RP2 genes and correlation with visual function. Sharon D, etal., Invest Ophthalmol Vis Sci. 2000 Aug;41(9):2712-21.
Additional References at PubMed
PMID:11847227   PMID:12417528   PMID:18376416   PMID:19056867   PMID:20106869   PMID:20458337   PMID:23376485   PMID:23533145   PMID:26455799  


Genomics

Comparative Map Data
Rp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X4,426,071 - 4,470,200 (-)NCBIGRCr8
mRatBN7.2X1,872,582 - 1,916,704 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX1,873,306 - 1,916,688 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX1,898,997 - 1,949,550 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X5,374,718 - 5,425,272 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X1,682,649 - 1,726,741 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X2,066,298 - 2,116,661 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX2,064,486 - 2,116,656 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X2,863,068 - 2,908,525 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX2,417,995 - 2,461,610 (-)NCBICelera
Cytogenetic MapXq11NCBI
RP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X46,837,043 - 46,882,358 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX46,837,043 - 46,882,358 (+)EnsemblGRCh38hg38GRCh38
GRCh37X46,696,478 - 46,741,793 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X46,581,320 - 46,626,737 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X46,452,628 - 46,498,043NCBI
CeleraX50,888,193 - 50,933,646 (+)NCBICelera
Cytogenetic MapXp11.3NCBI
HuRefX44,407,914 - 44,453,137 (+)NCBIHuRef
CHM1_1X46,728,434 - 46,773,905 (+)NCBICHM1_1
T2T-CHM13v2.0X46,244,009 - 46,289,363 (+)NCBIT2T-CHM13v2.0
Rp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X20,230,778 - 20,271,873 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX20,230,720 - 20,271,892 (+)EnsemblGRCm39 Ensembl
GRCm38X20,364,481 - 20,405,653 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX20,364,481 - 20,405,653 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X19,941,734 - 19,977,475 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X19,521,567 - 19,557,308 (+)NCBIMGSCv36mm8
CeleraX18,496,211 - 18,531,382 (+)NCBICelera
Cytogenetic MapXA1.3NCBI
cM MapX15.83NCBI
Rp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555161,160,148 - 1,193,540 (-)NCBIChiLan1.0ChiLan1.0
RP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X48,462,495 - 48,510,384 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X48,465,880 - 48,513,762 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X39,274,103 - 39,319,832 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X47,133,639 - 47,178,608 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX47,133,639 - 47,178,608 (+)Ensemblpanpan1.1panPan2
RP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X40,472,525 - 40,525,726 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX40,472,596 - 40,524,883 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX14,848,062 - 14,901,255 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X40,606,739 - 40,660,116 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX40,606,744 - 40,659,270 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X40,595,080 - 40,648,018 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X40,582,438 - 40,635,612 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X40,675,509 - 40,728,699 (+)NCBIUU_Cfam_GSD_1.0
Rp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X32,815,435 - 32,860,926 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650212,656,043 - 12,701,742 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650212,656,187 - 12,701,689 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX41,488,626 - 41,534,799 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X41,488,866 - 41,534,810 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X46,325,740 - 46,368,976 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X44,048,319 - 44,090,011 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX44,048,317 - 44,089,988 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660769,297,164 - 9,342,282 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248873,647,524 - 3,684,618 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248873,647,607 - 3,684,383 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rp2
127 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:139
Count of miRNA genes:123
Interacting mature miRNAs:128
Transcripts:ENSRNOT00000055077
Prediction methods:Microtar, Miranda, Pita, Rnahybrid
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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
70166Bp65Blood pressure QTL 655.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144797211374346Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat


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 6 14 5 8
Low 3 41 51 41 5 41 8 9 74 35 36 3 8
Below cutoff 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000055077   ⟹   ENSRNOP00000051952
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX1,873,306 - 1,916,688 (-)Ensembl
Rnor_6.0 EnsemblX2,069,330 - 2,116,483 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081913   ⟹   ENSRNOP00000069152
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX2,064,486 - 2,116,656 (-)Ensembl
RefSeq Acc Id: NM_001109012   ⟹   NP_001102482
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X4,426,073 - 4,470,189 (-)NCBI
mRatBN7.2X1,872,586 - 1,916,704 (-)NCBI
Rnor_6.0X2,066,298 - 2,116,661 (-)NCBI
Rnor_5.0X2,863,068 - 2,908,525 (-)NCBI
CeleraX2,417,995 - 2,461,610 (-)RGD
Sequence:
RefSeq Acc Id: XM_039099932   ⟹   XP_038955860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X4,426,071 - 4,470,200 (-)NCBI
mRatBN7.2X1,872,582 - 1,916,699 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001102482   ⟸   NM_001109012
- UniProtKB: D3ZTJ0 (UniProtKB/TrEMBL),   A6JZU2 (UniProtKB/TrEMBL),   A6JZU1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051952   ⟸   ENSRNOT00000055077
RefSeq Acc Id: ENSRNOP00000069152   ⟸   ENSRNOT00000081913
RefSeq Acc Id: XP_038955860   ⟸   XM_039099932
- Peptide Label: isoform X1
- UniProtKB: D3ZTJ0 (UniProtKB/TrEMBL),   A6JZU2 (UniProtKB/TrEMBL),   A6JZU1 (UniProtKB/TrEMBL)
Protein Domains
C-CAP/cofactor C-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JUM3-F1-model_v2 AlphaFold A0A0G2JUM3 1-409 view protein structure

Transcriptome

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

Promoters
RGD ID:13701699
Promoter ID:EPDNEW_R12223
Type:initiation region
Name:Rp2_1
Description:RP2, ARL3 GTPase activating protein
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_6.0X2,116,623 - 2,116,683EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565124 AgrOrtholog
BioCyc Gene G2FUF-3176 BioCyc
Ensembl Genes ENSRNOG00000025428 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055077 ENTREZGENE
  ENSRNOT00000055077.5 UniProtKB/TrEMBL
Gene3D-CATH 2.160.20.70 UniProtKB/TrEMBL
  3.30.70.141 UniProtKB/TrEMBL
InterPro C-CAP_CF_C-like UniProtKB/TrEMBL
  CAP/MinC_C UniProtKB/TrEMBL
  CAP_C_sf UniProtKB/TrEMBL
  CARP_motif UniProtKB/TrEMBL
  NDK-like_dom_sf UniProtKB/TrEMBL
  Tubulin-bd_cofactor_C UniProtKB/TrEMBL
  XRP2 UniProtKB/TrEMBL
KEGG Report rno:367714 UniProtKB/TrEMBL
NCBI Gene 367714 ENTREZGENE
PANTHER PROTEIN XRP2 UniProtKB/TrEMBL
  PTHR15440 UniProtKB/TrEMBL
Pfam TBCC UniProtKB/TrEMBL
PhenoGen Rp2 PhenoGen
PIRSF Protein_XRP2_ UniProtKB/TrEMBL
PROSITE C_CAP_COFACTOR_C UniProtKB/TrEMBL
RatGTEx ENSRNOG00000025428 RatGTEx
SMART CARP UniProtKB/TrEMBL
Superfamily-SCOP SSF54919 UniProtKB/TrEMBL
  SSF69340 UniProtKB/TrEMBL
UniProt A6JZU1 ENTREZGENE, UniProtKB/TrEMBL
  A6JZU2 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTJ0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-03 Rp2  RP2 activator of ARL3 GTPase  Rp2  RP2, ARL3 GTPase activating protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-03-27 Rp2  RP2, ARL3 GTPase activating protein  Rp2  retinitis pigmentosa 2 (X-linked recessive)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-06 Rp2  retinitis pigmentosa 2 (X-linked recessive)  Rp2  retinitis pigmentosa 2 homolog (human)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Rp2  retinitis pigmentosa 2 homolog (human)  Rp2h  retinitis pigmentosa 2 homolog (human)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Rp2h  retinitis pigmentosa 2 homolog (human)   Rp2h_predicted  retinitis pigmentosa 2 homolog (human) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Rp2h_predicted  retinitis pigmentosa 2 homolog (human) (predicted)  RGD1565124_predicted  similar to mouse Rp2 protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1565124_predicted  similar to mouse Rp2 protein (predicted)  LOC367714  similar to mouse Rp2 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC367714  similar to mouse Rp2 protein      Symbol and Name status set to provisional 70820 PROVISIONAL