Prrx2 (paired related homeobox 2) - Rat Genome Database

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Gene: Prrx2 (paired related homeobox 2) Rattus norvegicus
Analyze
Symbol: Prrx2
Name: paired related homeobox 2
RGD ID: 1311471
Description: Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; HMG box domain binding activity; and RNA polymerase II general transcription initiation factor activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including embryonic morphogenesis; positive regulation of cell population proliferation; and positive regulation of smoothened signaling pathway. Predicted to be active in nucleus. Orthologous to human PRRX2 (paired related homeobox 2); INTERACTS WITH 17alpha-ethynylestradiol; 3,3',4,4',5-pentachlorobiphenyl; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: paired mesoderm homeobox protein 2; Prx2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8334,530,331 - 34,566,284 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl334,520,173 - 34,566,284 (+)EnsemblGRCr8
mRatBN7.2314,132,574 - 14,168,533 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl314,094,004 - 14,168,535 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx317,204,856 - 17,240,853 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0325,789,846 - 25,825,841 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0324,037,214 - 24,073,226 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.039,681,871 - 9,718,051 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl39,681,871 - 9,718,051 (+)Ensemblrn6Rnor6.0
Rnor_5.0315,040,931 - 15,077,369 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.439,899,066 - 9,936,837 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera38,892,836 - 8,928,706 (+)NCBICelera
RGSC_v3.139,794,587 - 9,832,199 (+)NCBI
Cytogenetic Map3p12NCBI
JBrowse:




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

Cellular Component
nucleus  (IBA,IEA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9729491   PMID:9876178   PMID:9882503   PMID:10664157   PMID:11532916   PMID:12713735   PMID:16582099   PMID:22577874   PMID:23644741   PMID:24881871   PMID:25795141   PMID:39434056  


Genomics

Comparative Map Data
Prrx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8334,530,331 - 34,566,284 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl334,520,173 - 34,566,284 (+)EnsemblGRCr8
mRatBN7.2314,132,574 - 14,168,533 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl314,094,004 - 14,168,535 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx317,204,856 - 17,240,853 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0325,789,846 - 25,825,841 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0324,037,214 - 24,073,226 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.039,681,871 - 9,718,051 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl39,681,871 - 9,718,051 (+)Ensemblrn6Rnor6.0
Rnor_5.0315,040,931 - 15,077,369 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.439,899,066 - 9,936,837 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera38,892,836 - 8,928,706 (+)NCBICelera
RGSC_v3.139,794,587 - 9,832,199 (+)NCBI
Cytogenetic Map3p12NCBI
PRRX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389129,665,647 - 129,722,674 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9129,665,630 - 129,722,674 (+)Ensemblhg38GRCh38
GRCh379132,427,926 - 132,484,953 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369131,467,741 - 131,524,774 (+)NCBIBuild 36Build 36hg18NCBI36
Build 349129,507,473 - 129,564,503NCBI
Celera9103,078,740 - 103,135,771 (+)NCBICelera
Cytogenetic Map9q34.11NCBI
HuRef9102,027,059 - 102,084,049 (+)NCBIHuRef
CHM1_19132,576,580 - 132,633,630 (+)NCBICHM1_1
T2T-CHM13v2.09141,870,240 - 141,927,272 (+)NCBIT2T-CHM13v2.0
Prrx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39230,735,076 - 30,771,263 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl230,724,984 - 30,771,263 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38230,845,064 - 30,881,251 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl230,834,972 - 30,881,251 (+)Ensemblmm10GRCm38
MGSCv37230,700,887 - 30,736,767 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36230,667,290 - 30,703,262 (+)NCBIMGSCv36mm8
Celera230,550,237 - 30,586,613 (+)NCBICelera
Cytogenetic Map2BNCBI
cM Map221.74NCBI
PRRX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2119,626,787 - 9,684,403 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan199,629,131 - 9,686,753 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09100,792,324 - 100,849,923 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19129,478,374 - 129,506,866 (+)NCBIPanPan1.1PanPan1.1panPan2
PRRX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1954,089,046 - 54,112,595 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl954,093,163 - 54,096,348 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha953,285,306 - 53,346,966 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0954,984,314 - 55,035,503 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl954,988,556 - 55,035,116 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1953,767,114 - 53,825,066 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0954,083,947 - 54,145,111 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0954,176,396 - 54,229,502 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
PRRX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1269,853,200 - 269,903,469 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11269,853,134 - 269,902,808 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21303,710,625 - 303,770,644 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRRX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1128,424,415 - 8,447,959 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl128,424,737 - 8,480,393 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660796,958,220 - 7,015,963 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prrx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247605,656,521 - 5,692,934 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247605,656,456 - 5,684,383 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Prrx2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v154,740,114 - 4,775,928 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prrx2
157 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:153
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000008270
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32905627547904329Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)32862533967641995Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)33083238444921701Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)32905627547904329Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
D3Rat231  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8334,556,456 - 34,556,667 (+)Marker Load Pipeline
mRatBN7.2314,158,705 - 14,158,916 (+)MAPPERmRatBN7.2
Rnor_6.039,708,213 - 9,708,423NCBIRnor6.0
Rnor_5.0315,067,140 - 15,067,350UniSTSRnor5.0
RGSC_v3.439,925,541 - 9,925,751UniSTSRGSC3.4
RGSC_v3.439,925,540 - 9,925,751RGDRGSC3.4
Celera38,918,780 - 8,918,990UniSTS
RGSC_v3.139,820,908 - 9,821,119RGD
SHRSP x BN Map33.5699RGD
SHRSP x BN Map33.5699UniSTS
Cytogenetic Map3p12UniSTS
RH128429  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2314,168,188 - 14,168,404 (+)MAPPERmRatBN7.2
Rnor_6.039,717,705 - 9,717,920NCBIRnor6.0
Rnor_5.0315,077,023 - 15,077,238UniSTSRnor5.0
RGSC_v3.439,936,491 - 9,936,706UniSTSRGSC3.4
Celera38,928,360 - 8,928,575UniSTS
RH 3.4 Map348.5UniSTS
Cytogenetic Map3p12UniSTS
UniSTS:234365  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2314,168,292 - 14,168,416 (+)MAPPERmRatBN7.2
Rnor_6.039,717,809 - 9,717,932NCBIRnor6.0
Rnor_5.0315,077,127 - 15,077,250UniSTSRnor5.0
RGSC_v3.439,936,595 - 9,936,718UniSTSRGSC3.4
Celera38,928,464 - 8,928,587UniSTS
Cytogenetic Map3p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 130 62 61 30 26 30 6 241 126 11 102 61 92 31 5 5

Sequence


Ensembl Acc Id: ENSRNOT00000083251   ⟹   ENSRNOP00000070422
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl334,530,331 - 34,566,284 (+)Ensembl
mRatBN7.2 Ensembl314,132,315 - 14,168,535 (+)Ensembl
Rnor_6.0 Ensembl39,681,871 - 9,718,051 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000098429   ⟹   ENSRNOP00000096583
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl334,520,173 - 34,566,284 (+)Ensembl
mRatBN7.2 Ensembl314,122,414 - 14,168,535 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000105946   ⟹   ENSRNOP00000095627
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl314,133,139 - 14,168,533 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114142   ⟹   ENSRNOP00000085942
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl314,094,004 - 14,168,492 (+)Ensembl
RefSeq Acc Id: NM_001415156   ⟹   NP_001402085
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8334,530,331 - 34,566,284 (+)NCBI
mRatBN7.2314,132,574 - 14,168,533 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001402085 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL93289 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000070422
  ENSRNOP00000070422.2
  ENSRNOP00000096583.1
Ensembl Acc Id: ENSRNOP00000070422   ⟸   ENSRNOT00000083251
Ensembl Acc Id: ENSRNOP00000096583   ⟸   ENSRNOT00000098429
Ensembl Acc Id: ENSRNOP00000095627   ⟸   ENSRNOT00000105946
Ensembl Acc Id: ENSRNOP00000085942   ⟸   ENSRNOT00000114142
RefSeq Acc Id: NP_001402085   ⟸   NM_001415156
- UniProtKB: A0A0G2JXV9 (UniProtKB/TrEMBL)
Protein Domains
Homeobox   OAR

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JXV9-F1-model_v2 AlphaFold A0A0G2JXV9 1-247 view protein structure

Transcriptome

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

Promoters
RGD ID:13691967
Promoter ID:EPDNEW_R2492
Type:initiation region
Name:Prrx2_1
Description:paired related homeobox 2
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_6.039,681,934 - 9,681,994EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311471 AgrOrtholog
BioCyc Gene G2FUF-50193 BioCyc
Ensembl Genes ENSRNOG00000058329 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083251 ENTREZGENE
  ENSRNOT00000083251.3 UniProtKB/TrEMBL
  ENSRNOT00000098429.2 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeo_OAR UniProtKB/TrEMBL
  Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  PRRX1/2 UniProtKB/TrEMBL
NCBI Gene 113931 ENTREZGENE
PANTHER PAIRED MESODERM HOMEOBOX PROTEIN 2 UniProtKB/TrEMBL
  PTHR46385 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  OAR UniProtKB/TrEMBL
PhenoGen Prrx2 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
  OAR UniProtKB/TrEMBL
RatGTEx ENSRNOG00000058329 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A0G2JXV9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ASS2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Prrx2  paired related homeobox 2   Prrx2_predicted  paired related homeobox 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Prrx2_predicted  paired related homeobox 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED