Pramef20-ps2 (PRAME family member 20, pseudogene 2) - Rat Genome Database

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Gene: Pramef20-ps2 (PRAME family member 20, pseudogene 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Pramef20-ps2 (Ensembl: RGD1562423)
Name: PRAME family member 20, pseudogene 2 (Ensembl:similar to DNA segment, Chr 5, ERATO Doi 577, expressed)
RGD ID: 1562423
Description:
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: hypothetical protein LOC680332; LOC102556007; LOC501889; LOC501902; LOC680332; PRAME family member 20-like; PRAME family member 8-like; putative PRAME family member 25-like; RGD1562423; RGD1562853; similar to DNA segment, Chr 5, ERATO Doi 577, expressed
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81414,075,377 - 14,078,036 (-)NCBIGRCr8
mRatBN7.21413,771,426 - 13,774,085 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.014658,179 - 660,837 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14658,179 - 660,837 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014659,368 - 662,026 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41415,863,022 - 15,865,680 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1413,788,718 - 13,791,397 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



#
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions


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Variants in Pramef20-ps2
41 total Variants

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:110
Interacting mature miRNAs:115
Transcripts:ENSRNOT00000043926
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.


1 to 10 of 16 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat

1 to 10 of 16 rows



reproductive system
8


RefSeq Transcripts XM_006250509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000043926   ⟹   ENSRNOP00000041431
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl14658,179 - 660,837 (-)Ensembl
RefSeq Acc Id: XM_006250509   ⟹   XP_006250571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.014658,179 - 660,837 (-)NCBI
Rnor_5.014659,368 - 662,026 (-)NCBI
Sequence:
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZMJ1-F1-model_v2 AlphaFold D3ZMJ1 1-481 view protein structure


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



Database
Acc Id
Source(s)
BioCyc Gene G2FUF-16314 BioCyc
Ensembl Genes ENSRNOG00000048600 Ensembl
  ENSRNOG00000073978 ENTREZGENE
NCBI Gene 501902 ENTREZGENE
PhenoGen Pramef20-ps2 PhenoGen
RatGTEx ENSRNOG00000048600 RatGTEx


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-10 Pramef20-ps2  PRAME family member 20, pseudogene 2  RGD1562423  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  Symbol and Name Changed 1299863 APPROVED
2015-07-29 RGD1562423  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  LOC102556007  putative PRAME family member 25-like  Data merged from RGD:7610437 737654 PROVISIONAL
2015-07-29 RGD1562423  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  LOC680332  hypothetical protein LOC680332  Data merged from RGD:1592997 737654 PROVISIONAL
2015-07-29 RGD1562423  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  RGD1562853  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  Data merged from RGD:1562853 737654 PROVISIONAL
2013-12-18 LOC102556007  putative PRAME family member 25-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1562853  similar to DNA segment, Chr 5, ERATO Doi 577, expressed   RGD1562853_predicted  similar to DNA segment, Chr 5, ERATO Doi 577, expressed (predicted)  'predicted' is removed 2292626 APPROVED
2008-04-30 RGD1562423  similar to DNA segment, Chr 5, ERATO Doi 577, expressed   RGD1562423_predicted  similar to DNA segment, Chr 5, ERATO Doi 577, expressed (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 LOC680332  hypothetical protein LOC680332  LOC684367  similar to PRAME family member 3  Data merged from RGD:1591445 1643240 APPROVED
2006-11-20 LOC680332  hypothetical protein LOC680332      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684367  similar to PRAME family member 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1562853_predicted  similar to DNA segment, Chr 5, ERATO Doi 577, expressed (predicted)  LOC501889  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  Symbol and Name status set to approved 1299863 APPROVED
2006-03-07 RGD1562423_predicted  similar to DNA segment, Chr 5, ERATO Doi 577, expressed (predicted)  LOC501902  similar to DNA segment, Chr 5, ERATO Doi 577, expressed  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501889  similar to DNA segment, Chr 5, ERATO Doi 577, expressed      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-02-09 LOC501902  similar to DNA segment, Chr 5, ERATO Doi 577, expressed      Symbol and Name status set to provisional 70820 PROVISIONAL