Pacrgl (parkin coregulated like) - Rat Genome Database

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Gene: Pacrgl (parkin coregulated like) Rattus norvegicus
Analyze
Symbol: Pacrgl
Name: parkin coregulated like
RGD ID: 1311045
Description: Orthologous to human PACRGL (parkin coregulated like); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; tetrachloromethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC360947; PACRG-like protein; PARK2 co-regulated-like; RGD1311045; similar to RIKEN cDNA 4933428G09
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
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
GRCr81466,744,625 - 66,769,593 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1466,744,625 - 66,769,631 (-)EnsemblGRCr8
mRatBN7.21462,532,019 - 62,556,977 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1466,931,901 - 66,956,864 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01468,245,541 - 68,270,504 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01464,642,299 - 64,667,262 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01466,749,801 - 66,771,762 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)Ensemblrn6Rnor6.0
Rnor_5.01466,780,982 - 66,803,977 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41467,454,503 - 67,486,170 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1461,581,229 - 61,605,489 (-)NCBICelera
RGSC_v3.11467,457,362 - 67,533,135 (-)NCBI
Cytogenetic Map14q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Pacrgl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81466,744,625 - 66,769,593 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1466,744,625 - 66,769,631 (-)EnsemblGRCr8
mRatBN7.21462,532,019 - 62,556,977 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1466,931,901 - 66,956,864 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01468,245,541 - 68,270,504 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01464,642,299 - 64,667,262 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01466,749,801 - 66,771,762 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)Ensemblrn6Rnor6.0
Rnor_5.01466,780,982 - 66,803,977 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41467,454,503 - 67,486,170 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1461,581,229 - 61,605,489 (-)NCBICelera
RGSC_v3.11467,457,362 - 67,533,135 (-)NCBI
Cytogenetic Map14q11NCBI
PACRGL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38420,696,282 - 20,767,373 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl420,696,282 - 20,752,907 (+)Ensemblhg38GRCh38
GRCh37420,697,905 - 20,754,523 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36420,311,387 - 20,339,072 (+)NCBIBuild 36Build 36hg18NCBI36
Celera421,158,541 - 21,186,485 (+)NCBICelera
Cytogenetic Map4p15.31NCBI
HuRef420,050,801 - 20,078,740 (+)NCBIHuRef
CHM1_1420,699,964 - 20,727,908 (+)NCBICHM1_1
T2T-CHM13v2.0420,677,960 - 20,749,010 (+)NCBIT2T-CHM13v2.0
Pacrgl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39548,529,736 - 48,546,187 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl548,485,294 - 48,571,636 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38548,372,392 - 48,388,756 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl548,327,952 - 48,414,294 (+)Ensemblmm10GRCm38
MGSCv37548,763,631 - 48,779,995 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36548,660,640 - 48,677,004 (+)NCBIMGSCv36mm8
Celera545,774,778 - 45,791,146 (+)NCBICelera
Cytogenetic Map5B3NCBI
cM Map526.25NCBI
Pacrgl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554803,909,040 - 3,925,744 (-)Ensembl
ChiLan1.0NW_0049554803,911,746 - 3,925,095 (-)NCBIChiLan1.0ChiLan1.0
PACRGL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2320,949,554 - 21,003,887 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1421,145,884 - 21,200,365 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0415,103,510 - 15,169,395 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1420,390,252 - 20,448,838 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl420,394,417 - 20,422,196 (+)EnsemblpanPan2panpan1.1
PACRGL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1388,896,792 - 88,918,243 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl388,897,264 - 88,918,168 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha391,356,048 - 91,377,450 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0389,880,966 - 89,902,417 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl389,880,967 - 89,902,416 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1389,026,849 - 89,048,220 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0389,111,051 - 89,132,654 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0389,494,657 - 89,516,487 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pacrgl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528554,324,652 - 54,354,347 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364778,026,415 - 8,056,057 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364778,026,280 - 8,056,035 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PACRGL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl815,192,031 - 15,210,566 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1815,192,027 - 15,215,372 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2815,449,890 - 15,469,991 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PACRGL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12729,516,064 - 29,560,288 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2729,540,955 - 29,560,205 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604776,131,228 - 76,177,516 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pacrgl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475511,392,751 - 11,409,352 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475511,387,771 - 11,409,497 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pacrgl
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11157,584,133 - 57,602,552 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pacrgl
32 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:119
Count of miRNA genes:90
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000005587
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142252151767521517Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
BE099631  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21462,532,558 - 62,532,712 (+)MAPPERmRatBN7.2
Rnor_6.01466,750,341 - 66,750,494NCBIRnor6.0
Rnor_5.01466,781,522 - 66,781,675UniSTSRnor5.0
RGSC_v3.41467,455,043 - 67,455,196UniSTSRGSC3.4
Celera1461,581,769 - 61,581,922UniSTS
RH 3.4 Map14477.6UniSTS
Cytogenetic Map14q11UniSTS


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 66 164 91 90 59 89 59 6 352 188 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000005587   ⟹   ENSRNOP00000005587
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1466,744,625 - 66,769,631 (-)Ensembl
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)Ensembl
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000121392   ⟹   ENSRNOP00000105743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1466,744,625 - 66,769,631 (-)Ensembl
RefSeq Acc Id: NM_001398926   ⟹   NP_001385855
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,555 (-)NCBI
mRatBN7.21462,532,030 - 62,556,960 (-)NCBI
RefSeq Acc Id: NR_174142
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,555 (-)NCBI
mRatBN7.21462,532,030 - 62,556,960 (-)NCBI
RefSeq Acc Id: NR_174143
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,555 (-)NCBI
mRatBN7.21462,532,030 - 62,556,960 (-)NCBI
RefSeq Acc Id: NR_174144
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,555 (-)NCBI
mRatBN7.21462,532,030 - 62,556,960 (-)NCBI
RefSeq Acc Id: XM_006251057   ⟹   XP_006251119
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,579 (-)NCBI
mRatBN7.21462,532,019 - 62,556,977 (-)NCBI
Rnor_6.01466,749,801 - 66,771,762 (-)NCBI
Rnor_5.01466,780,982 - 66,803,977 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599557   ⟹   XP_017455046
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,593 (-)NCBI
mRatBN7.21462,532,019 - 62,556,972 (-)NCBI
Rnor_6.01466,749,801 - 66,771,762 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599558   ⟹   XP_017455047
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81466,744,625 - 66,769,347 (-)NCBI
mRatBN7.21462,532,019 - 62,556,737 (-)NCBI
Rnor_6.01466,749,801 - 66,771,518 (-)NCBI
Sequence:
RefSeq Acc Id: XP_006251119   ⟸   XM_006251057
- Peptide Label: isoform X1
- UniProtKB: D3ZE96 (UniProtKB/TrEMBL),   A6IJK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455046   ⟸   XM_017599557
- Peptide Label: isoform X1
- UniProtKB: D3ZE96 (UniProtKB/TrEMBL),   A6IJK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455047   ⟸   XM_017599558
- Peptide Label: isoform X1
- UniProtKB: D3ZE96 (UniProtKB/TrEMBL),   A6IJK1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005587   ⟸   ENSRNOT00000005587
RefSeq Acc Id: NP_001385855   ⟸   NM_001398926
- UniProtKB: D3ZE96 (UniProtKB/TrEMBL),   A6IJK1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105743   ⟸   ENSRNOT00000121392

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZE96-F1-model_v2 AlphaFold D3ZE96 1-247 view protein structure

Transcriptome

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

Promoters
RGD ID:13699348
Promoter ID:EPDNEW_R9870
Type:single initiation site
Name:Pacrgl_1
Description:parkin coregulated like
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_6.01466,771,655 - 66,771,715EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311045 AgrOrtholog
BioCyc Gene G2FUF-15566 BioCyc
Ensembl Genes ENSRNOG00000004140 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005587 ENTREZGENE
  ENSRNOT00000005587.6 UniProtKB/TrEMBL
  ENSRNOT00000121392.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Parkin_co-regulated_protein UniProtKB/TrEMBL
NCBI Gene 360947 ENTREZGENE
PANTHER PACRG-LIKE PROTEIN UniProtKB/TrEMBL
  PTHR21207 UniProtKB/TrEMBL
Pfam ParcG UniProtKB/TrEMBL
PhenoGen Pacrgl PhenoGen
RatGTEx ENSRNOG00000004140 RatGTEx
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0ABK0LJF4_RAT UniProtKB/TrEMBL
  A6IJK1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZE96 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-05-12 Pacrgl  parkin coregulated like  Pacrgl  PARK2 co-regulated-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-14 Pacrgl  PARK2 co-regulated-like  RGD1311045  similar to RIKEN cDNA 4933428G09   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311045  similar to RIKEN cDNA 4933428G09   RGD1311045_predicted  similar to RIKEN cDNA 4933428G09 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311045_predicted  similar to RIKEN cDNA 4933428G09 (predicted)  LOC360947_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC360947_predicted  similar to RIKEN cDNA 4933428G09 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL