Pkm-ps20 (pyruvate kinase M1/2, pseudogene 20) - Rat Genome Database

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Gene: Pkm-ps20 (pyruvate kinase M1/2, pseudogene 20) Rattus norvegicus
Analyze
Symbol: Pkm-ps20
Name: pyruvate kinase M1/2, pseudogene 20
RGD ID: 2321795
Description:
Type: pseudo (Ensembl: pseudogene)
RefSeq Status: INFERRED
Previously known as: LOC100364062; LOC498661; LOC499423; M2 pyruvate kinase-like; pyruvate kinase PKM; RGD1561179; similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat
Related Functional Gene: Pkm  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82016,878,087 - 16,880,057 (-)NCBIGRCr8
mRatBN7.22016,878,893 - 16,880,863 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2016,878,660 - 16,880,870 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2017,605,487 - 17,607,453 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02016,960,521 - 16,962,487 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02017,433,139 - 17,435,105 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02018,045,418 - 18,047,255 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2018,045,427 - 18,047,019 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02020,223,272 - 20,225,073 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42017,544,142 - 17,545,740 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map20p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22082260  


Genomics

Variants

.
Variants in Pkm-ps20
10 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:43
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000039144
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat

Markers in Region
Pkm2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera859,519,198 - 59,519,266UniSTS
Cytogenetic Map8q24UniSTS


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 1 13 2 2 1 2 1 23 3 1
Low 20 12 12 12 1 3 42 25 32 1
Below cutoff 1 4 21 19 5 19 7 7 3 7 3 7 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000039144
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2016,878,660 - 16,880,870 (-)Ensembl
Rnor_6.0 Ensembl2018,045,427 - 18,047,019 (+)Ensembl
RefSeq Acc Id: XM_003751952   ⟹   XP_003752000
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22016,878,655 - 16,880,885 (-)NCBI
Rnor_6.02018,045,418 - 18,047,255 (+)NCBI
Rnor_5.02020,223,272 - 20,225,073 (+)NCBI
Sequence:
Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-4065 BioCyc
Ensembl Genes ENSRNOG00000026519 Ensembl, ENTREZGENE
NCBI Gene 100364062 ENTREZGENE
PhenoGen Pkm-ps20 PhenoGen
RatGTEx ENSRNOG00000026519 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-12-06 Pkm-ps20  pyruvate kinase M1/2, pseudogene 20  LOC100364062  M2 pyruvate kinase-like  Name and Symbol changed 629549 APPROVED
2015-07-29 LOC100364062  M2 pyruvate kinase-like  RGD1561179  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat  Data merged from RGD:1561179 737654 PROVISIONAL
2010-05-06 LOC100364062  M2 pyruvate kinase-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1561179  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat   RGD1561179_predicted  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 RGD1561179_predicted  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat (predicted)  RGD1561681_predicted  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat (predicted)  Data merged from RGD:1561681 1643240 APPROVED
2006-03-07 RGD1561179_predicted  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat (predicted)  LOC499423  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat  Symbol and Name status set to approved 1299863 APPROVED
2006-03-07 RGD1561681_predicted  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat (predicted)  LOC498661  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499423  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-02-09 LOC498661  similar to pyruvate kinase (EC 2.7.1.40) isozyme M2 - rat      Symbol and Name status set to provisional 70820 PROVISIONAL