Pex10 (peroxisomal biogenesis factor 10) - Rat Genome Database

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Gene: Pex10 (peroxisomal biogenesis factor 10) Rattus norvegicus
Analyze
Symbol: Pex10
Name: peroxisomal biogenesis factor 10
RGD ID: 1591776
Description: Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in cellular response to reactive oxygen species; protein import into peroxisome matrix, receptor recycling; and protein polyubiquitination. Located in peroxisomal membrane. Human ortholog(s) of this gene implicated in peroxisomal biogenesis disorder and peroxisome biogenesis disorder 6A. Orthologous to human PEX10 (peroxisomal biogenesis factor 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; indometacin.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC680424; peroxisome biogenesis factor 10; similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)
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
GRCr85170,910,136 - 170,915,302 (+)NCBIGRCr8
mRatBN7.25165,627,799 - 165,632,965 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5165,627,799 - 165,632,965 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5168,333,758 - 168,338,924 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,155,172 - 170,160,338 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,117,701 - 170,122,867 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05172,469,978 - 172,475,144 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5172,469,978 - 172,475,144 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05175,925,857 - 175,931,023 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45171,868,928 - 171,874,094 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5163,833,565 - 163,838,731 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
peroxisomal membrane  (IBA,IDA,ISO)
peroxisome  (ISO)

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. Peripheral nervous system defects in a mouse model for peroxisomal biogenesis disorders. Hanson MG, etal., Dev Biol. 2014 Nov 1;395(1):84-95. doi: 10.1016/j.ydbio.2014.08.026. Epub 2014 Aug 28.
3. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:9683594   PMID:9700193   PMID:9922452   PMID:10562279   PMID:10862081   PMID:21525035  


Genomics

Comparative Map Data
Pex10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85170,910,136 - 170,915,302 (+)NCBIGRCr8
mRatBN7.25165,627,799 - 165,632,965 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5165,627,799 - 165,632,965 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5168,333,758 - 168,338,924 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,155,172 - 170,160,338 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,117,701 - 170,122,867 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05172,469,978 - 172,475,144 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5172,469,978 - 172,475,144 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05175,925,857 - 175,931,023 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45171,868,928 - 171,874,094 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5163,833,565 - 163,838,731 (+)NCBICelera
Cytogenetic Map5q36NCBI
PEX10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812,403,974 - 2,413,827 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12,403,964 - 2,413,797 (-)EnsemblGRCh38hg38GRCh38
GRCh3712,335,413 - 2,345,266 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612,326,101 - 2,333,870 (-)NCBINCBI36Build 36hg18NCBI36
Build 3412,368,404 - 2,376,172NCBI
Celera1242,696 - 250,465 (+)NCBICelera
Cytogenetic Map1p36.32NCBI
HuRef11,614,950 - 1,622,719 (-)NCBIHuRef
CHM1_112,323,310 - 2,331,079 (-)NCBICHM1_1
T2T-CHM13v2.011,843,564 - 1,853,417 (-)NCBIT2T-CHM13v2.0
Pex10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,151,487 - 155,156,863 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4155,151,473 - 155,156,890 (+)EnsemblGRCm39 Ensembl
GRCm384155,067,030 - 155,072,406 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,067,016 - 155,072,433 (+)EnsemblGRCm38mm10GRCm38
MGSCv374154,441,139 - 154,446,515 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364153,910,830 - 153,916,233 (+)NCBIMGSCv36mm8
Celera4157,339,382 - 157,344,758 (+)NCBICelera
Cytogenetic Map4E2NCBI
cM Map486.17NCBI
Pex10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554868,785,174 - 8,791,247 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554868,785,199 - 8,801,914 (+)NCBIChiLan1.0ChiLan1.0
PEX10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21225,842,522 - 225,850,326 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11224,503,525 - 224,511,318 (+)NCBINHGRI_mPanPan1
PanPan1.1 Ensembl12,270,698 - 2,278,401 (-)Ensemblpanpan1.1panPan2
PEX10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1557,289,530 - 57,291,864 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl557,289,326 - 57,291,802 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha557,365,090 - 57,370,826 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0557,490,823 - 57,496,559 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl557,490,823 - 57,496,544 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1557,482,087 - 57,487,825 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0557,374,420 - 57,380,164 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,764,072 - 57,769,814 (-)NCBIUU_Cfam_GSD_1.0
Pex10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505828,313,242 - 28,321,199 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367371,144,700 - 1,152,718 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367371,144,753 - 1,152,720 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PEX10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1664,311,743 - 64,317,693 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,926,691 - 58,932,591 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PEX10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120129,145,587 - 129,155,687 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20129,145,638 - 129,153,968 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605433,493,108 - 33,501,971 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pex10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248187,597,729 - 7,605,322 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248187,598,467 - 7,605,067 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pex10
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:189
Count of miRNA genes:128
Interacting mature miRNAs:148
Transcripts:ENSRNOT00000036819
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
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat

Markers in Region
RH128041  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,632,583 - 165,632,773 (+)MAPPERmRatBN7.2
Rnor_6.05172,474,763 - 172,474,952NCBIRnor6.0
Rnor_5.05175,930,642 - 175,930,831UniSTSRnor5.0
RGSC_v3.45171,873,713 - 171,873,902UniSTSRGSC3.4
Celera5163,838,350 - 163,838,539UniSTS
RH 3.4 Map51157.2UniSTS
Cytogenetic Map5q36UniSTS


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 29 17 8 17 47 35 40 11
Low 3 43 28 24 11 24 8 11 27 1 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000036819   ⟹   ENSRNOP00000031473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5165,627,799 - 165,632,965 (+)Ensembl
Rnor_6.0 Ensembl5172,469,978 - 172,475,144 (+)Ensembl
RefSeq Acc Id: NM_001109405   ⟹   NP_001102875
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85170,910,136 - 170,915,302 (+)NCBI
mRatBN7.25165,627,799 - 165,632,965 (+)NCBI
Rnor_6.05172,469,978 - 172,475,144 (+)NCBI
Rnor_5.05175,925,857 - 175,931,023 (+)NCBI
RGSC_v3.45171,868,928 - 171,874,094 (+)RGD
Celera5163,833,565 - 163,838,731 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102875 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL81284 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000031473
  ENSRNOP00000031473.4
RefSeq Acc Id: NP_001102875   ⟸   NM_001109405
- UniProtKB: D3ZC81 (UniProtKB/TrEMBL),   A6IUN3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000031473   ⟸   ENSRNOT00000036819
Protein Domains
RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZC81-F1-model_v2 AlphaFold D3ZC81 1-324 view protein structure

Transcriptome

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

Promoters
RGD ID:13694317
Promoter ID:EPDNEW_R4841
Type:multiple initiation site
Name:Pex10_1
Description:peroxisomal biogenesis factor 10
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_6.05172,470,052 - 172,470,112EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1591776 AgrOrtholog
BioCyc Gene G2FUF-38940 BioCyc
Ensembl Genes ENSRNOG00000024012 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036819 ENTREZGENE
  ENSRNOT00000036819.6 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
InterPro PEX2/10 UniProtKB/TrEMBL
  Pex_N UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report rno:680424 UniProtKB/TrEMBL
NCBI Gene 680424 ENTREZGENE
PANTHER PEROXISOME ASSEMBLY PROTEIN 10 UniProtKB/TrEMBL
  PEROXISOME BIOGENESIS FACTOR 10 UniProtKB/TrEMBL
Pfam Pex2_Pex12 UniProtKB/TrEMBL
  zf-RING_2 UniProtKB/TrEMBL
PhenoGen Pex10 PhenoGen
PROSITE ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024012 RatGTEx
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
UniProt A6IUN3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZC81 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-23 Pex10  peroxisomal biogenesis factor 10  Pex10  peroxisome biogenesis factor 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-24 Pex10  peroxisome biogenesis factor 10  Pex10  peroxisomal biogenesis factor 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-03 Pex10  peroxisomal biogenesis factor 10  Pex10  peroxisome biogenesis factor 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Pex10  peroxisome biogenesis factor 10  LOC680424  similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC680424  similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)  LOC687157  similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)  Data merged from RGD:1588929 1643240 APPROVED
2006-11-20 LOC680424  similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC687157  similar to Peroxisome assembly protein 10 (Peroxin-10) (Peroxisome biogenesis factor 10) (RING finger protein 69)      Symbol and Name status set to provisional 70820 PROVISIONAL