P3h2 (prolyl 3-hydroxylase 2) - Rat Genome Database

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Gene: P3h2 (prolyl 3-hydroxylase 2) Rattus norvegicus
Analyze
Symbol: P3h2
Name: prolyl 3-hydroxylase 2
RGD ID: 1304568
Description: Enables procollagen-proline 3-dioxygenase activity. Involved in collagen metabolic process. Predicted to be located in several cellular components, including Golgi apparatus; basement membrane; and nucleoplasm. Predicted to be active in endoplasmic reticulum. Orthologous to human P3H2 (prolyl 3-hydroxylase 2); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: leprecan-like 1; leprecan-like protein 1; Leprel1; LOC102554639; LOC288016; MGC116247; prolyl 3-hydroxylase 2-like
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
GRCr81188,139,086 - 88,280,221 (+)NCBIGRCr8
mRatBN7.21174,634,267 - 74,775,422 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1174,634,267 - 74,775,421 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1183,443,019 - 83,584,372 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01176,078,068 - 76,219,425 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01175,139,871 - 75,281,175 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01178,028,885 - 78,169,746 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1178,029,038 - 78,169,648 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01182,549,554 - 82,690,068 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41176,687,437 - 76,828,785 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11176,745,025 - 76,886,374 (+)NCBI
Celera1173,544,026 - 73,685,131 (+)NCBICelera
Cytogenetic Map11q22NCBI
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. A role for prolyl 3-hydroxylase 2 in post-translational modification of fibril-forming collagens. Fernandes RJ, etal., J Biol Chem. 2011 Sep 2;286(35):30662-9. doi: 10.1074/jbc.M111.267906. Epub 2011 Jul 11.
2. 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.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. GOA pipeline RGD automated data 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
Additional References at PubMed
PMID:12477932   PMID:15063763   PMID:15489334   PMID:18487197   PMID:19436308  


Genomics

Comparative Map Data
P3h2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81188,139,086 - 88,280,221 (+)NCBIGRCr8
mRatBN7.21174,634,267 - 74,775,422 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1174,634,267 - 74,775,421 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1183,443,019 - 83,584,372 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01176,078,068 - 76,219,425 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01175,139,871 - 75,281,175 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01178,028,885 - 78,169,746 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1178,029,038 - 78,169,648 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01182,549,554 - 82,690,068 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41176,687,437 - 76,828,785 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11176,745,025 - 76,886,374 (+)NCBI
Celera1173,544,026 - 73,685,131 (+)NCBICelera
Cytogenetic Map11q22NCBI
P3H2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383189,956,728 - 190,122,278 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3189,956,728 - 190,122,437 (-)EnsemblGRCh38hg38GRCh38
GRCh373189,674,517 - 189,840,067 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363191,157,316 - 191,321,412 (-)NCBINCBI36Build 36hg18NCBI36
Build 343191,157,323 - 191,321,420NCBI
Celera3188,102,461 - 188,268,906 (-)NCBICelera
Cytogenetic Map3q28NCBI
HuRef3187,072,503 - 187,237,981 (-)NCBIHuRef
CHM1_13189,637,377 - 189,803,103 (-)NCBICHM1_1
T2T-CHM13v2.03192,773,118 - 192,938,644 (-)NCBIT2T-CHM13v2.0
P3h2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391625,778,034 - 25,924,563 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1625,778,038 - 25,924,534 (-)EnsemblGRCm39 Ensembl
GRCm381625,959,284 - 26,105,813 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1625,959,288 - 26,105,784 (-)EnsemblGRCm38mm10GRCm38
MGSCv371625,960,409 - 26,105,870 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361625,875,672 - 26,021,133 (-)NCBIMGSCv36mm8
Celera1626,503,926 - 26,649,250 (-)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1617.63NCBI
P3h2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542017,964,153 - 18,117,095 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542017,964,153 - 18,118,442 (+)NCBIChiLan1.0ChiLan1.0
P3H2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22187,822,467 - 187,990,737 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13187,827,183 - 187,995,467 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03186,976,926 - 187,141,678 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13195,532,341 - 195,695,510 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3195,533,511 - 195,695,598 (-)Ensemblpanpan1.1panPan2
P3H2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13422,035,124 - 22,185,146 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3422,023,068 - 22,185,026 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3426,128,347 - 26,278,616 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03421,969,192 - 22,119,559 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3421,967,663 - 22,119,559 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13421,984,404 - 22,141,097 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03421,977,205 - 22,127,973 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03422,219,915 - 22,370,251 (-)NCBIUU_Cfam_GSD_1.0
P3h2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602114,177,035 - 114,339,277 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936578268,856 - 431,137 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936578268,815 - 431,123 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
P3H2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13127,414,958 - 127,572,163 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113127,414,955 - 127,572,165 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213136,665,659 - 136,863,053 (-)NCBISscrofa10.2Sscrofa10.2susScr3
P3H2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11584,185,288 - 84,348,186 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1584,185,299 - 84,348,011 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604157,767,198 - 57,931,651 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
P3h2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473067,072,478 - 67,228,599 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473067,072,389 - 67,228,207 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in P3h2
1452 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat

Markers in Region
D11Got65  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21174,713,769 - 74,713,884 (+)MAPPERmRatBN7.2
Rnor_6.01178,107,976 - 78,108,092NCBIRnor6.0
Rnor_5.01182,611,208 - 82,611,324UniSTSRnor5.0
RGSC_v3.41176,766,885 - 76,767,002RGDRGSC3.4
RGSC_v3.41176,766,886 - 76,767,002UniSTSRGSC3.4
RGSC_v3.11176,824,475 - 76,824,591RGD
Celera1173,623,597 - 73,623,713UniSTS
RH 3.4 Map11609.3RGD
RH 3.4 Map11609.3UniSTS
Cytogenetic Map11q22-q23UniSTS
AU048531  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21174,713,764 - 74,713,885 (+)MAPPERmRatBN7.2
Rnor_6.01178,107,971 - 78,108,093NCBIRnor6.0
Rnor_5.01182,611,207 - 82,611,329UniSTSRnor5.0
RGSC_v3.41176,766,881 - 76,767,003UniSTSRGSC3.4
Celera1173,623,592 - 73,623,714UniSTS
Cytogenetic Map11q22-q23UniSTS


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 20 5 11 31 17 11
Low 3 23 52 41 8 41 8 11 72 4 19 8
Below cutoff 2 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000089540   ⟹   ENSRNOP00000074673
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1174,634,267 - 74,775,421 (+)Ensembl
Rnor_6.0 Ensembl1178,029,038 - 78,169,648 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095886   ⟹   ENSRNOP00000092914
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1174,634,267 - 74,775,421 (+)Ensembl
RefSeq Acc Id: NM_001025627   ⟹   NP_001020798
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81188,139,086 - 88,280,221 (+)NCBI
mRatBN7.21174,634,267 - 74,775,422 (+)NCBI
Rnor_6.01178,028,885 - 78,169,746 (+)NCBI
Rnor_5.01182,549,554 - 82,690,068 (-)NCBI
RGSC_v3.41176,687,437 - 76,828,785 (+)RGD
Celera1173,544,026 - 73,685,131 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001020798 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH99107 (Get FASTA)   NCBI Sequence Viewer  
  EDL78114 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074673
  ENSRNOP00000074673.2
  ENSRNOP00000092914.1
  ENSRNOP00055005446
  ENSRNOP00060017621
GenBank Protein Q4KLM6 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001020798   ⟸   NM_001025627
- Peptide Label: precursor
- UniProtKB: Q4KLM6 (UniProtKB/Swiss-Prot),   A0A0G2K8N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074673   ⟸   ENSRNOT00000089540
RefSeq Acc Id: ENSRNOP00000092914   ⟸   ENSRNOT00000095886
Protein Domains
Fe2OG dioxygenase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4KLM6-F1-model_v2 AlphaFold Q4KLM6 1-703 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304568 AgrOrtholog
BioCyc Gene G2FUF-20933 BioCyc
BioCyc Pathway PWY-7894 [procollagen hydroxylation and glycosylation] BioCyc
BioCyc Pathway Image PWY-7894 BioCyc
Ensembl Genes ENSRNOG00000055751 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055004599 UniProtKB/Swiss-Prot
  ENSRNOG00060013050 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000089540 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000089540.2 UniProtKB/Swiss-Prot
  ENSRNOT00000095886.1 UniProtKB/TrEMBL
  ENSRNOT00055007285 UniProtKB/Swiss-Prot
  ENSRNOT00060022234 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  q2cbj1_9rhob like domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7460856 IMAGE-MGC_LOAD
InterPro Oxoglu/Fe-dep_dioxygenase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P3H UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pro_4_hyd_alph UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pro_4_hyd_alph_FE2OG_OXY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:288016 UniProtKB/Swiss-Prot
MGC_CLONE MGC:116247 IMAGE-MGC_LOAD
NCBI Gene 288016 ENTREZGENE
PANTHER PTHR14049 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR14049:SF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam 2OG-FeII_Oxy_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen P3h2 PhenoGen
PROSITE ER_TARGET UniProtKB/Swiss-Prot
  FE2OG_OXY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000055751 RatGTEx
  ENSRNOG00055004599 RatGTEx
  ENSRNOG00060013050 RatGTEx
SMART P4Hc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K8N3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AGJ2_RAT UniProtKB/TrEMBL
  P3H2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 P3h2  prolyl 3-hydroxylase 2  LOC102554639  prolyl 3-hydroxylase 2-like  Data merged from RGD:7561514 737654 PROVISIONAL
2014-12-17 P3h2  prolyl 3-hydroxylase 2  Leprel1  leprecan-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-17 LOC102554639  prolyl 3-hydroxylase 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Leprel1  leprecan-like 1  Leprel1_predicted  leprecan-like 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Leprel1_predicted  leprecan-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED