Pramef8-ps2 (PRAME family member 8, pseudogene 2) - Rat Genome Database

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Gene: Pramef8-ps2 (PRAME family member 8, pseudogene 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Pramef8-ps2 (Ensembl: LOC685907)
Name: PRAME family member 8, pseudogene 2 (Ensembl:similar to PRAME family member 8)
RGD ID: 1587867
Description: Predicted to be active in cytoplasm. Orthologous to several human genes including PRAMEF1 (PRAME family member 1); PRAMEF10 (PRAME family member 10); and PRAMEF11 (PRAME family member 11).
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: LOC501904; LOC685907; PRAME family member 8-like; RGD1563483; similar to CDNA sequence BC061212; similar to PRAME family member 8
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81414,426,501 - 14,435,796 (+)NCBIGRCr8
mRatBN7.21414,122,555 - 14,131,850 (+)NCBImRatBN7.2mRatBN7.2
Rnor_6.01552,782,978 - 52,785,460 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1552,782,972 - 52,785,460 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01556,505,831 - 56,508,313 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41415,924,146 - 15,931,311 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Genomics

Variants

.
Variants in Pramef8-ps2
12 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:60
Interacting mature miRNAs:60
Transcripts:ENSRNOT00000034101
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat


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

endocrine system hemolymphoid system renal system reproductive system respiratory system
High
Medium
Low 1
Below cutoff 2 1 2 3 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_008770839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000034101   ⟹   ENSRNOP00000029029
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1552,782,972 - 52,785,460 (+)Ensembl
RefSeq Acc Id: XM_008770839   ⟹   XP_008769061
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01552,782,978 - 52,785,460 (+)NCBI
Sequence:
Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587867 AgrOrtholog
BioCyc Gene G2FUF-16301 BioCyc
Ensembl Genes ENSRNOG00000050184 Ensembl
NCBI Gene 685907 ENTREZGENE
PhenoGen Pramef8-ps2 PhenoGen
RatGTEx ENSRNOG00000050184 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-10 Pramef8-ps2  PRAME family member 8, pseudogene 2  LOC685907  similar to PRAME family member 8  Symbol and Name Changed 1299863 APPROVED
2021-03-09 LOC685907  similar to PRAME family member 8  RGD1563483  similar to CDNA sequence BC061212  Data merged from RGD:1563483 737654 PROVISIONAL
2012-07-05 LOC685907  similar to PRAME family member 8  LOC685907  similar to PRAME family member 8  Gene reactivated at release of RGSC5.0 assembly 2298974 REACTIVATED
2008-04-30 RGD1563483  similar to CDNA sequence BC061212   RGD1563483_predicted  similar to CDNA sequence BC061212 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-19 LOC685907  similar to PRAME family member 8      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1563483_predicted  similar to CDNA sequence BC061212 (predicted)  LOC501904  similar to CDNA sequence BC061212  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501904  similar to CDNA sequence BC061212      Symbol and Name status set to provisional 70820 PROVISIONAL