Pycr2 (pyrroline-5-carboxylate reductase 2) - Rat Genome Database

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Gene: Pycr2 (pyrroline-5-carboxylate reductase 2) Rattus norvegicus
Analyze
Symbol: Pycr2
Name: pyrroline-5-carboxylate reductase 2
RGD ID: 1310074
Description: Predicted to enable pyrroline-5-carboxylate reductase activity. Predicted to be involved in L-proline biosynthetic process and cellular response to oxidative stress. Predicted to be located in mitochondrion. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 10. Orthologous to human PYCR2 (pyrroline-5-carboxylate reductase 2); PARTICIPATES IN AGAT deficiency pathway; arginine and proline metabolic pathway; guanidinoacetate methyltransferase deficiency pathway; INTERACTS WITH 17beta-estradiol; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC364064; P5C reductase 2; P5CR 2; pyrroline-5-carboxylate reductase family, member 2
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
GRCr81395,158,236 - 95,162,030 (+)NCBIGRCr8
mRatBN7.21392,626,462 - 92,630,256 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,626,471 - 92,634,184 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1395,131,781 - 95,135,575 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,531,710 - 96,535,504 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,706,406 - 93,710,200 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,184,624 - 99,188,418 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,184,564 - 99,188,431 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013104,182,905 - 104,186,734 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41396,633,455 - 96,637,249 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11396,822,390 - 96,826,184 (+)NCBI
Celera1392,171,198 - 92,174,992 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (IEA,ISO,ISS)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:23024808   PMID:25865492  


Genomics

Comparative Map Data
Pycr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,158,236 - 95,162,030 (+)NCBIGRCr8
mRatBN7.21392,626,462 - 92,630,256 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,626,471 - 92,634,184 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1395,131,781 - 95,135,575 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,531,710 - 96,535,504 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,706,406 - 93,710,200 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,184,624 - 99,188,418 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,184,564 - 99,188,431 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013104,182,905 - 104,186,734 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41396,633,455 - 96,637,249 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11396,822,390 - 96,826,184 (+)NCBI
Celera1392,171,198 - 92,174,992 (+)NCBICelera
Cytogenetic Map13q26NCBI
PYCR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381225,919,878 - 225,924,250 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1225,919,877 - 225,924,340 (-)EnsemblGRCh38hg38GRCh38
GRCh371226,107,578 - 226,111,950 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361224,174,203 - 224,178,588 (-)NCBINCBI36Build 36hg18NCBI36
Build 341222,414,315 - 222,418,700NCBI
Celera1199,298,629 - 199,303,014 (-)NCBICelera
Cytogenetic Map1q42.12NCBI
HuRef1196,625,292 - 196,629,755 (-)NCBIHuRef
CHM1_11227,379,901 - 227,384,364 (-)NCBICHM1_1
T2T-CHM13v2.01225,107,658 - 225,112,030 (-)NCBIT2T-CHM13v2.0
Pycr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391180,731,839 - 180,735,653 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1180,731,858 - 180,735,653 (+)EnsemblGRCm39 Ensembl
GRCm381180,904,274 - 180,908,088 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1180,904,293 - 180,908,088 (+)EnsemblGRCm38mm10GRCm38
MGSCv371182,834,405 - 182,838,219 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361182,740,984 - 182,744,763 (+)NCBIMGSCv36mm8
Celera1187,967,388 - 187,971,204 (+)NCBICelera
Cytogenetic Map1H4NCBI
cM Map184.46NCBI
Pycr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955489138,600 - 143,112 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955489138,600 - 143,112 (-)NCBIChiLan1.0ChiLan1.0
PYCR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2123,612,831 - 23,617,694 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1123,561,603 - 23,566,049 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01201,381,270 - 201,385,703 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11206,381,539 - 206,386,002 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1206,381,539 - 206,386,002 (-)Ensemblpanpan1.1panPan2
PYCR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1738,902,705 - 38,905,924 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha738,384,909 - 38,388,130 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0738,736,696 - 38,739,925 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl738,736,694 - 38,739,920 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1738,576,503 - 38,579,717 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0738,584,643 - 38,587,863 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0738,854,425 - 38,857,653 (+)NCBIUU_Cfam_GSD_1.0
Pycr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934452,020,591 - 52,025,713 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365262,720,521 - 2,726,762 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365262,721,579 - 2,726,699 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PYCR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1013,838,085 - 13,845,894 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11013,841,755 - 13,845,900 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21015,943,366 - 15,947,506 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PYCR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1253,846,518 - 3,850,976 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl253,846,501 - 3,851,856 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660553,852,944 - 3,857,403 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pycr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480731,830 - 63,985 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480737,742 - 63,887 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pycr2
4 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:359
Count of miRNA genes:206
Interacting mature miRNAs:235
Transcripts:ENSRNOT00000004379
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
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

Markers in Region
RH133498  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21392,629,892 - 92,630,086 (+)MAPPERmRatBN7.2
Rnor_6.01399,188,055 - 99,188,248NCBIRnor6.0
Rnor_5.013104,186,371 - 104,186,564UniSTSRnor5.0
RGSC_v3.41396,636,886 - 96,637,079UniSTSRGSC3.4
Celera1392,174,629 - 92,174,822UniSTS
RH 3.4 Map13631.8UniSTS
Cytogenetic Map13q26UniSTS


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 2 30 35 20 18 20 1 74 24 41 11
Low 1 13 22 21 1 21 8 10 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004379   ⟹   ENSRNOP00000004379
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1392,626,471 - 92,634,184 (+)Ensembl
Rnor_6.0 Ensembl1399,184,564 - 99,188,431 (+)Ensembl
RefSeq Acc Id: NM_001012208   ⟹   NP_001012208
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,158,236 - 95,162,030 (+)NCBI
mRatBN7.21392,626,462 - 92,630,256 (+)NCBI
Rnor_6.01399,184,624 - 99,188,418 (+)NCBI
Rnor_5.013104,182,905 - 104,186,734 (+)NCBI
RGSC_v3.41396,633,455 - 96,637,249 (+)RGD
Celera1392,171,198 - 92,174,992 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012208 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79222 (Get FASTA)   NCBI Sequence Viewer  
  EDL94837 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004379
  ENSRNOP00000004379.4
  ENSRNOP00055017251
  ENSRNOP00060008736
  ENSRNOP00065022568
GenBank Protein Q6AY23 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001012208   ⟸   NM_001012208
- UniProtKB: Q6AY23 (UniProtKB/Swiss-Prot),   A6JGI1 (UniProtKB/TrEMBL),   A0A8L2Q0U6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004379   ⟸   ENSRNOT00000004379
Protein Domains
Pyrroline-5-carboxylate reductase catalytic N-   Pyrroline-5-carboxylate reductase dimerisation

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY23-F1-model_v2 AlphaFold Q6AY23 1-320 view protein structure

Transcriptome

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

Promoters
RGD ID:13699063
Promoter ID:EPDNEW_R9588
Type:initiation region
Name:Pycr2_1
Description:pyrroline-5-carboxylate reductase 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_6.01399,184,602 - 99,184,662EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310074 AgrOrtholog
BioCyc Gene G2FUF-17109 BioCyc
BioCyc Pathway ARG-PRO-PWY [L-arginine degradation VI (arginase 2 pathway)] BioCyc
BioCyc Pathway Image ARG-PRO-PWY BioCyc
Ensembl Genes ENSRNOG00000003267 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055012501 UniProtKB/Swiss-Prot
  ENSRNOG00060007077 UniProtKB/Swiss-Prot
  ENSRNOG00065017076 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004379 ENTREZGENE
  ENSRNOT00000004379.6 UniProtKB/TrEMBL
  ENSRNOT00055021318 UniProtKB/Swiss-Prot
  ENSRNOT00060011624 UniProtKB/Swiss-Prot
  ENSRNOT00065028513 UniProtKB/Swiss-Prot
Gene3D-CATH NAD(P)-binding Rossmann-like Domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ProC C-terminal domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132148 IMAGE-MGC_LOAD
InterPro 6-PGluconate_DH-like_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P5C_Rdtase_cat_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P5CR_dimer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pyrroline-COOH_reductase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:364064 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94295 IMAGE-MGC_LOAD
NCBI Gene 364064 ENTREZGENE
PANTHER PTHR11645 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PYRROLINE-5-CARBOXYLATE REDUCTASE 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam F420_oxidored UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P5CR_dimer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pycr2 PhenoGen
PIRSF Pyrrol-5-carb_rd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE P5CR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003267 RatGTEx
  ENSRNOG00055012501 RatGTEx
  ENSRNOG00060007077 RatGTEx
  ENSRNOG00065017076 RatGTEx
Superfamily-SCOP SSF48179 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF51735 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8L2Q0U6 ENTREZGENE, UniProtKB/TrEMBL
  A6JGI1 ENTREZGENE, UniProtKB/TrEMBL
  P5CR2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-29 Pycr2  pyrroline-5-carboxylate reductase 2  Pycr2  pyrroline-5-carboxylate reductase family, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Pycr2  pyrroline-5-carboxylate reductase family, member 2  Pycr2_predicted  pyrroline-5-carboxylate reductase family, member 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Pycr2_predicted  pyrroline-5-carboxylate reductase family, member 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED