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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81466,744,625 - 66,769,593 (-)NCBIGRCr8
mRatBN7.21462,532,019 - 62,556,977 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1466,931,901 - 66,956,864 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01468,245,541 - 68,270,504 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01464,642,299 - 64,667,262 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01466,749,801 - 66,771,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01466,780,982 - 66,803,977 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41467,454,503 - 67,486,170 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11467,457,362 - 67,533,135 (-)NCBI
Celera1461,581,229 - 61,605,489 (-)NCBICelera
Cytogenetic Map14q11NCBI
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

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 (-)NCBIGRCr8
mRatBN7.21462,532,019 - 62,556,977 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1466,931,901 - 66,956,864 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01468,245,541 - 68,270,504 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01464,642,299 - 64,667,262 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01466,749,801 - 66,771,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01466,780,982 - 66,803,977 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41467,454,503 - 67,486,170 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11467,457,362 - 67,533,135 (-)NCBI
Celera1461,581,229 - 61,605,489 (-)NCBICelera
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 (+)EnsemblGRCh38hg38GRCh38
GRCh37420,697,905 - 20,754,523 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36420,311,387 - 20,339,072 (+)NCBINCBI36Build 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 Ensembl
GRCm38548,372,392 - 48,388,756 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl548,327,952 - 48,414,294 (+)EnsemblGRCm38mm10GRCm38
MGSCv37548,763,631 - 48,779,995 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha391,356,048 - 91,377,450 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0389,880,966 - 89,902,417 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475511,387,771 - 11,409,497 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pacrgl
58 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat

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
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 4 8 8 8 59 14 33
Low 3 39 49 33 19 33 8 11 15 21 8 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005587   ⟹   ENSRNOP00000005587
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1462,532,030 - 62,556,993 (-)Ensembl
Rnor_6.0 Ensembl1466,749,809 - 66,771,750 (-)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:
Reference Protein Sequences
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:
RefSeq Acc Id: ENSRNOP00000005587   ⟸   ENSRNOT00000005587
RefSeq Acc Id: NP_001385855   ⟸   NM_001398926
- UniProtKB: D3ZE96 (UniProtKB/TrEMBL),   A6IJK1 (UniProtKB/TrEMBL)

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
  ENSRNOT00000005587.5 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
KEGG Report rno:360947 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 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