Pgk2 (phosphoglycerate kinase 2) - Rat Genome Database

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Gene: Pgk2 (phosphoglycerate kinase 2) Rattus norvegicus
Analyze
Symbol: Pgk2
Name: phosphoglycerate kinase 2
RGD ID: 1306627
Description: Predicted to enable ADP binding activity; ATP binding activity; and phosphoglycerate kinase activity. Predicted to be involved in gluconeogenesis and glycolytic process. Predicted to act upstream of or within flagellated sperm motility. Predicted to be located in cilium. Predicted to be active in cytosol and sperm fibrous sheath. Orthologous to human PGK2 (phosphoglycerate kinase 2); PARTICIPATES IN gluconeogenesis pathway; glycolysis pathway; glycolysis/gluconeogenesis pathway; INTERACTS WITH bisphenol A; fenvalerate; (-)-epigallocatechin 3-gallate (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC316265
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
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
GRCr8927,976,913 - 27,978,479 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl927,973,459 - 28,079,866 (+)EnsemblGRCr8
mRatBN7.2920,480,367 - 20,481,933 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,480,203 - 20,571,481 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx929,010,916 - 29,012,482 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,114,730 - 34,116,296 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,425,549 - 32,427,115 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,095,774 - 24,097,340 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,095,751 - 24,097,337 (+)Ensemblrn6Rnor6.0
Rnor_5.0922,956,349 - 22,957,915 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4916,705,747 - 16,707,313 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera918,123,078 - 18,124,644 (+)NCBICelera
RGSC_v3.1916,703,068 - 16,704,633 (+)NCBI
Cytogenetic Map9q13NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cilium  (ISO)
cytoplasm  (IEA)
cytosol  (IBA)
sperm fibrous sheath  (IBA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:2823118   PMID:12477932   PMID:16687649   PMID:19759366   PMID:21630459   PMID:23533145   PMID:25002582  


Genomics

Comparative Map Data
Pgk2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8927,976,913 - 27,978,479 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl927,973,459 - 28,079,866 (+)EnsemblGRCr8
mRatBN7.2920,480,367 - 20,481,933 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,480,203 - 20,571,481 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx929,010,916 - 29,012,482 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,114,730 - 34,116,296 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,425,549 - 32,427,115 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,095,774 - 24,097,340 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,095,751 - 24,097,337 (+)Ensemblrn6Rnor6.0
Rnor_5.0922,956,349 - 22,957,915 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4916,705,747 - 16,707,313 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera918,123,078 - 18,124,644 (+)NCBICelera
RGSC_v3.1916,703,068 - 16,704,633 (+)NCBI
Cytogenetic Map9q13NCBI
PGK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38649,785,660 - 49,787,285 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl649,785,660 - 49,787,285 (-)Ensemblhg38GRCh38
GRCh37649,753,373 - 49,754,998 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36649,861,323 - 49,862,966 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34649,861,324 - 49,862,966NCBI
Celera651,309,449 - 51,311,138 (-)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,483,695 - 49,485,384 (-)NCBIHuRef
CHM1_1649,756,278 - 49,757,967 (-)NCBICHM1_1
T2T-CHM13v2.0649,627,627 - 49,629,252 (-)NCBIT2T-CHM13v2.0
Pgk2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391740,517,909 - 40,519,500 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1740,517,906 - 40,519,531 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381740,207,018 - 40,208,609 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1740,207,015 - 40,208,640 (-)Ensemblmm10GRCm38
MGSCv371740,343,963 - 40,345,554 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361739,670,497 - 39,672,026 (-)NCBIMGSCv36mm8
Celera1743,614,083 - 43,615,674 (-)NCBICelera
Cytogenetic Map17B2NCBI
cM Map1719.44NCBI
Pgk2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554118,216,432 - 8,218,065 (+)NCBIChiLan1.0ChiLan1.0
PGK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2564,255,058 - 64,270,523 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1660,120,713 - 60,136,179 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0649,355,154 - 49,356,804 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1650,615,916 - 50,617,599 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl650,616,199 - 50,617,452 (-)EnsemblpanPan2panpan1.1
PGK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11217,616,653 - 17,622,073 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1217,610,662 - 17,622,324 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1217,512,676 - 17,518,089 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01218,110,850 - 18,116,264 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1218,104,848 - 18,116,522 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11217,629,958 - 17,635,375 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01217,736,007 - 17,741,431 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01217,865,686 - 17,871,100 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
PGK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl743,839,241 - 43,840,892 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1743,839,239 - 43,840,892 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2750,231,411 - 50,233,064 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7q14-q15NCBI
PGK2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11722,619,062 - 22,621,157 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1722,619,615 - 22,620,868 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604449,758,034 - 49,759,685 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pgk2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479914,621,673 - 14,622,926 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462479914,621,413 - 14,623,050 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pgk2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1495,426,938 - 95,428,501 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pgk2
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:188
Count of miRNA genes:127
Interacting mature miRNAs:137
Transcripts:ENSRNOT00000018177
Prediction methods:Microtar, Miranda, Rnahybrid
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
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9534647950346479Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9875049253750492Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)9131250552Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)949664545496645Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9621499551214995Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9875049253750492Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9141763315Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9534647950416711Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9671488829567695Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)949664545496645Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)92103143049025574Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)949664545496645Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9621499551214995Rat

Markers in Region
BE106404  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2920,481,700 - 20,481,851 (+)MAPPERmRatBN7.2
Rnor_6.0924,097,108 - 24,097,258NCBIRnor6.0
Rnor_5.0922,957,683 - 22,957,833UniSTSRnor5.0
RGSC_v3.4916,707,081 - 16,707,231UniSTSRGSC3.4
Celera918,124,412 - 18,124,562UniSTS
RH 3.4 Map9175.5UniSTS
Cytogenetic Map9q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
2 7 2 17 15 18 12 8 12 40 16 16 5 27 6

Sequence


Ensembl Acc Id: ENSRNOT00000018177   ⟹   ENSRNOP00000018177
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,976,701 - 28,052,619 (+)Ensembl
mRatBN7.2 Ensembl920,480,203 - 20,554,260 (+)Ensembl
Rnor_6.0 Ensembl924,095,751 - 24,097,337 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000112647   ⟹   ENSRNOP00000094932
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,973,482 - 28,079,866 (+)Ensembl
mRatBN7.2 Ensembl920,480,203 - 20,555,169 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000115954   ⟹   ENSRNOP00000081650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,976,701 - 28,068,181 (+)Ensembl
mRatBN7.2 Ensembl920,480,203 - 20,571,481 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000126040   ⟹   ENSRNOP00000112371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,976,737 - 28,052,619 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000129948   ⟹   ENSRNOP00000112138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,973,459 - 28,052,619 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000131484   ⟹   ENSRNOP00000102461
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,976,760 - 27,978,475 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000161931   ⟹   ENSRNOP00000107539
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,976,366 - 28,052,619 (+)Ensembl
RefSeq Acc Id: NM_001012130   ⟹   NP_001012130
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8927,976,913 - 27,978,479 (+)NCBI
mRatBN7.2920,480,367 - 20,481,933 (+)NCBI
Rnor_6.0924,095,774 - 24,097,340 (+)NCBI
Rnor_5.0922,956,349 - 22,957,915 (+)NCBI
RGSC_v3.4916,705,747 - 16,707,313 (+)RGD
Celera918,123,078 - 18,124,644 (+)RGD
Sequence:
RefSeq Acc Id: NP_001012130   ⟸   NM_001012130
- UniProtKB: Q5XIV1 (UniProtKB/TrEMBL),   A6JJ65 (UniProtKB/TrEMBL),   A0A8I5ZS38 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018177   ⟸   ENSRNOT00000018177
Ensembl Acc Id: ENSRNOP00000081650   ⟸   ENSRNOT00000115954
Ensembl Acc Id: ENSRNOP00000094932   ⟸   ENSRNOT00000112647
Ensembl Acc Id: ENSRNOP00000112371   ⟸   ENSRNOT00000126040
Ensembl Acc Id: ENSRNOP00000107539   ⟸   ENSRNOT00000161931
Ensembl Acc Id: ENSRNOP00000112138   ⟸   ENSRNOT00000129948
Ensembl Acc Id: ENSRNOP00000102461   ⟸   ENSRNOT00000131484

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIV1-F1-model_v2 AlphaFold Q5XIV1 1-417 view protein structure

Transcriptome

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

Promoters
RGD ID:13696569
Promoter ID:EPDNEW_R7093
Type:initiation region
Name:Pgk2_1
Description:phosphoglycerate kinase 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_6.0924,095,792 - 24,095,852EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306627 AgrOrtholog
BioCyc Gene G2FUF-28071 BioCyc
BioCyc Pathway ANAGLYCOLYSIS-PWY [glycolysis III (from glucose)] BioCyc
  PWY66-399 [gluconeogenesis III] BioCyc
BioCyc Pathway Image ANAGLYCOLYSIS-PWY BioCyc
  PWY66-399 BioCyc
Ensembl Genes ENSRNOG00000013600 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018177.7 UniProtKB/TrEMBL
  ENSRNOT00000112647.2 UniProtKB/TrEMBL
  ENSRNOT00000115954 ENTREZGENE
  ENSRNOT00000115954.2 UniProtKB/TrEMBL
  ENSRNOT00000126040.1 UniProtKB/TrEMBL
  ENSRNOT00000129948.1 UniProtKB/TrEMBL
  ENSRNOT00000131484.1 UniProtKB/TrEMBL
  ENSRNOT00000161931.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1260 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7111073 IMAGE-MGC_LOAD
InterPro Phosphoglycerate_kinase UniProtKB/TrEMBL
  Phosphoglycerate_kinase_CS UniProtKB/TrEMBL
  Phosphoglycerate_kinase_N UniProtKB/TrEMBL
  Phosphoglycerate_kinase_sf UniProtKB/TrEMBL
KEGG Report rno:316265 UniProtKB/TrEMBL
MGC_CLONE MGC:93835 IMAGE-MGC_LOAD
NCBI Gene 316265 ENTREZGENE
PANTHER PGK UniProtKB/TrEMBL
  PHOSPHOGLYCERATE KINASE 2 UniProtKB/TrEMBL
Pfam PGK UniProtKB/TrEMBL
PhenoGen Pgk2 PhenoGen
PIRSF Pgk UniProtKB/TrEMBL
PRINTS PHGLYCKINASE UniProtKB/TrEMBL
PROSITE PGLYCERATE_KINASE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013600 RatGTEx
Superfamily-SCOP PGK UniProtKB/TrEMBL
UniProt A0A8I5ZS38 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LAK4_RAT UniProtKB/TrEMBL
  A6JJ65 ENTREZGENE
  Q5XIV1 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A6JJ65 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Pgk2  phosphoglycerate kinase 2  Pgk2_predicted  phosphoglycerate kinase 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Pgk2_predicted  phosphoglycerate kinase 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED