Platr20 (pluripotency associated transcript 20) - Rat Genome Database

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Gene: Platr20 (pluripotency associated transcript 20) Mus musculus
Analyze
Symbol: Platr20
Name: pluripotency associated transcript 20
RGD ID: 1608761
MGI Page MGI
Description: Is active in nucleus.
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: 5133400J02Rik; hypothetical protein LOC71297; uncharacterized protein LOC71297
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391151,080,660 - 51,111,245 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1151,064,847 - 51,111,275 (-)EnsemblGRCm39 Ensembl
GRCm381151,189,833 - 51,220,418 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1151,189,833 - 51,220,418 (-)EnsemblGRCm38mm10GRCm38
MGSCv371151,003,333 - 51,033,920 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361151,003,333 - 51,033,920 (-)NCBIMGSCv36mm8
Celera1155,749,598 - 55,780,183 (-)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.01NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IDA)

Molecular Function

References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:14610273   PMID:16141072   PMID:16141073   PMID:18799693   PMID:24316575   PMID:26048247   PMID:28839193  
PMID:35483741  


Genomics

Variants

.
Variants in Platr20
1543 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:222
Count of miRNA genes:202
Interacting mature miRNAs:215
Transcripts:ENSMUST00000137964, ENSMUST00000143209
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
12801459Leuf1_mleukocyte filtration 1 (mouse)111857861652578716Mouse
12801460Intim2_mintima modifier 2 (mouse)111857861652578716Mouse
12801457Intmrm2_mintima/media ratio modifier 2 (mouse)111857861652578716Mouse
1300938Bulb3_mbulb size 3 (mouse)Not determined111857861652578716Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
1300579Thypr1_mthymocyte proliferative response 1 (mouse)Not determined111928257753282715Mouse
14746971Manh70_mmandible shape 70 (mouse)111990589053905890Mouse
4141398Tgq22_mtriglyceride QTL 22 (mouse)Not determined2116340655163406Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
10044006Hbnr13_mHeligmosomoides bakeri nematode resistance 13 (mouse)Not determined112577262659772741Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4142475Ity2a_mimmunity to S. typhimurium 2a (mouse)Not determined113776858060402716Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
10053675Eae44b_mexperimental allergic encephalomyelitis susceptibility 44b (mouse)Not determined113995072854094448Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
1300713Vmbic10_mventral midbrain iron content 10 (mouse)Not determined114277262654081064Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000137964
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,081,078 - 51,110,353 (-)Ensembl
GRCm38.p6 Ensembl1151,190,251 - 51,219,526 (-)Ensembl
RefSeq Acc Id: ENSMUST00000143209
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,080,660 - 51,111,245 (-)Ensembl
GRCm38.p6 Ensembl1151,189,833 - 51,220,418 (-)Ensembl
RefSeq Acc Id: ENSMUST00000241476
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,079,754 - 51,111,270 (-)Ensembl
RefSeq Acc Id: ENSMUST00000242099
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,064,847 - 51,111,271 (-)Ensembl
RefSeq Acc Id: ENSMUST00000243048
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,080,654 - 51,111,273 (-)Ensembl
RefSeq Acc Id: ENSMUST00000243083
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,080,657 - 51,111,250 (-)Ensembl
RefSeq Acc Id: ENSMUST00000243322
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,110,178 - 51,111,250 (-)Ensembl
RefSeq Acc Id: ENSMUST00000243483
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,064,847 - 51,111,250 (-)Ensembl
RefSeq Acc Id: ENSMUST00000244243
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1151,080,660 - 51,111,275 (-)Ensembl
RefSeq Acc Id: NR_110444
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391151,080,660 - 51,111,245 (-)NCBI
GRCm381151,189,833 - 51,220,418 (-)NCBI
Celera1155,749,598 - 55,780,183 (-)NCBI
Sequence:
Promoters
RGD ID:8674536
Promoter ID:EPDNEW_M15299
Type:multiple initiation site
Name:Platr20_1
Description:Mus musculus pluripotency associated transcript 20 , long non-codingRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381151,220,416 - 51,220,476EPDNEW
RGD ID:15093908
Promoter ID:EPDNEWNC_M1822
Type:single initiation site
Name:Platr20_1
Description:pluripotency associated transcript 20 [Source:MGISymbol;Acc:MGI:1918547]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381151,220,416 - 51,220,476EPDNEWNC

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000086646 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000143209 ENTREZGENE
MGD MGI:1918547 ENTREZGENE
NCBI Gene 71297 ENTREZGENE
PhenoGen Platr20 PhenoGen
RNAcentral URS000075BC85 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-06-16 Platr20  pluripotency associated transcript 20  5133400J02Rik  RIKEN cDNA 5133400J02 gene  Symbol and/or name change 5135510 APPROVED