Paxx (PAXX, non-homologous end joining factor) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Paxx (PAXX, non-homologous end joining factor) Rattus norvegicus
Analyze
Symbol: Paxx
Name: PAXX, non-homologous end joining factor
RGD ID: 1306215
Description: Predicted to enable DNA polymerase binding activity; molecular adaptor activity; and protein homodimerization activity. Predicted to be involved in double-strand break repair via nonhomologous end joining. Predicted to be located in nucleoplasm. Predicted to be part of nonhomologous end joining complex. Predicted to be active in nucleus and site of double-strand break. Orthologous to human PAXX (PAXX non-homologous end joining factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC296565; LOC296565; RGD1306215; similar to hypothetical protein MGC36831; uncharacterized protein C9orf142 homolog; uncharacterized protein LOC296565
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
mRatBN7.238,274,762 - 8,276,338 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,274,762 - 8,276,521 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,379,836 - 11,381,396 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0319,966,060 - 19,967,620 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0318,155,908 - 18,157,468 (-)NCBIRnor_WKY
Rnor_6.032,678,987 - 2,681,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,678,956 - 2,680,622 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,660,400 - 2,662,025 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,625,547 - 3,627,090 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,625,550 - 3,627,166 (-)NCBI
Celera33,099,865 - 3,101,408 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8634083   PMID:12477932   PMID:23376485   PMID:25574025   PMID:25670504   PMID:25941166  


Genomics

Comparative Map Data
Paxx
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.238,274,762 - 8,276,338 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,274,762 - 8,276,521 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,379,836 - 11,381,396 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0319,966,060 - 19,967,620 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0318,155,908 - 18,157,468 (-)NCBIRnor_WKY
Rnor_6.032,678,987 - 2,681,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,678,956 - 2,680,622 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,660,400 - 2,662,025 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,625,547 - 3,627,090 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,625,550 - 3,627,166 (-)NCBI
Celera33,099,865 - 3,101,408 (-)NCBICelera
Cytogenetic Map3p13NCBI
PAXX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,992,422 - 136,993,976 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl9136,992,422 - 136,993,984 (+)EnsemblGRCh38hg38GRCh38
GRCh379139,886,874 - 139,888,428 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,006,691 - 139,008,249 (+)NCBINCBI36Build 36hg18NCBI36
Celera9110,399,180 - 110,400,738 (+)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,345,976 - 109,347,534 (+)NCBIHuRef
CHM1_19140,035,627 - 140,037,185 (+)NCBICHM1_1
T2T-CHM13v2.09149,226,833 - 149,228,387 (+)NCBIT2T-CHM13v2.0
Paxx
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,345,132 - 25,352,666 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,345,153 - 25,351,106 (-)EnsemblGRCm39 Ensembl
GRCm38225,455,120 - 25,462,654 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,455,141 - 25,461,094 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,315,008 - 25,316,614 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,281,497 - 25,283,103 (-)NCBIMGSCv36mm8
Celera225,186,977 - 25,188,583 (-)NCBICelera
Cytogenetic Map2A3NCBI
Paxx
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,017,971 - 5,019,489 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555135,017,971 - 5,019,489 (+)NCBIChiLan1.0ChiLan1.0
PAXX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19137,021,230 - 137,022,812 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9137,021,230 - 137,022,805 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09108,052,793 - 108,055,298 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PAXX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,637,735 - 48,639,289 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,637,731 - 48,639,239 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha947,851,392 - 47,852,948 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,515,823 - 49,517,381 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,515,819 - 49,517,325 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,292,036 - 48,293,594 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,590,753 - 48,592,303 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,638,112 - 48,639,666 (-)NCBIUU_Cfam_GSD_1.0
Paxx
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,422,235 - 202,423,802 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669951,261 - 952,769 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936669951,256 - 952,804 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAXX
(Sus scrofa - pig)		 No map positions available.
PAXX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,200,945 - 1,202,628 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,201,116 - 1,202,505 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660584,098,761 - 4,102,845 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Paxx
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760913,574 - 914,708 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624760912,953 - 914,793 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Paxx
5 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:28
Count of miRNA genes:28
Interacting mature miRNAs:28
Transcripts:ENSRNOT00000020806
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat

Markers in Region
RH134408  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.238,274,857 - 8,275,142 (+)MAPPERmRatBN7.2
Rnor_6.032,679,083 - 2,679,367NCBIRnor6.0
Rnor_5.032,660,496 - 2,660,780UniSTSRnor5.0
RGSC_v3.433,625,641 - 3,625,925UniSTSRGSC3.4
Celera33,099,959 - 3,100,243UniSTS
Cytogenetic Map3p13UniSTS


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 nervous system renal system reproductive system respiratory system
High
Medium 32 26 26 26 63 24 29
Low 4 4 4 1 2 2
Below cutoff 1 2 8 2 10 2 5 10 8 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020806   ⟹   ENSRNOP00000020806
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,274,762 - 8,276,521 (-)Ensembl
Rnor_6.0 Ensembl32,678,956 - 2,680,622 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113013   ⟹   ENSRNOP00000084756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,274,766 - 8,276,239 (-)Ensembl
RefSeq Acc Id: NM_001106556   ⟹   NP_001100026
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,274,764 - 8,276,307 (-)NCBI
Rnor_6.032,678,989 - 2,680,532 (-)NCBI
Rnor_5.032,660,400 - 2,662,025 (-)NCBI
RGSC_v3.433,625,547 - 3,627,090 (-)RGD
Celera33,099,865 - 3,101,408 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233588   ⟹   XP_006233650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,274,764 - 8,276,338 (-)NCBI
Rnor_6.032,678,987 - 2,681,668 (-)NCBI
Rnor_5.032,660,400 - 2,662,025 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104716   ⟹   XP_038960644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,274,764 - 8,276,233 (-)NCBI
RefSeq Acc Id: XM_039104717   ⟹   XP_038960645
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,274,762 - 8,276,242 (-)NCBI
RefSeq Acc Id: XM_039104718   ⟹   XP_038960646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.238,274,762 - 8,276,300 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100026   ⟸   NM_001106556
- Sequence:
RefSeq Acc Id: XP_006233650   ⟸   XM_006233588
- Peptide Label: isoform X1
- UniProtKB: A0A0G2QC22 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020806   ⟸   ENSRNOT00000020806
RefSeq Acc Id: XP_038960646   ⟸   XM_039104718
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038960645   ⟸   XM_039104717
- Peptide Label: isoform X3
- UniProtKB: G3V7Z0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960644   ⟸   XM_039104716
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000084756   ⟸   ENSRNOT00000113013

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2QC22-F1-model_v2 AlphaFold A0A0G2QC22 1-205 view protein structure

Transcriptome

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

Promoters
RGD ID:13691880
Promoter ID:EPDNEW_R2404
Type:initiation region
Name:Paxx_1
Description:PAXX, non-homologous end joining factor
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_6.032,680,464 - 2,680,524EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306215 AgrOrtholog
BioCyc Gene G2FUF-50451 BioCyc
Ensembl Genes ENSRNOG00000015294 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020806.7 UniProtKB/TrEMBL
  ENSRNOP00000084756.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020806.8 UniProtKB/TrEMBL
  ENSRNOT00000113013.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7930772 IMAGE-MGC_LOAD
InterPro DUF4610 UniProtKB/TrEMBL
KEGG Report rno:296565 UniProtKB/TrEMBL
MGC_CLONE MGC:188415 IMAGE-MGC_LOAD
NCBI Gene 296565 ENTREZGENE
PANTHER PROTEIN PAXX UniProtKB/TrEMBL
  PTHR28586 UniProtKB/TrEMBL
Pfam DUF4610 UniProtKB/TrEMBL
PhenoGen Paxx PhenoGen
UniProt A0A0G2QC22 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A089_RAT UniProtKB/TrEMBL
  B2RYB2_RAT UniProtKB/TrEMBL
  G3V7Z0 ENTREZGENE
UniProt Secondary G3V7Z0 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-20 Paxx  PAXX, non-homologous end joining factor  RGD1306215  similar to hypothetical protein MGC36831  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1306215  similar to hypothetical protein MGC36831   RGD1306215_predicted  similar to hypothetical protein MGC36831 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1306215_predicted  similar to hypothetical protein MGC36831 (predicted)  LOC296565_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC296565_predicted  similar to hypothetical protein MGC36831 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL