Gm5087 (predicted gene 5087) - Rat Genome Database

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Gene: Gm5087 (predicted gene 5087) Mus musculus
Analyze
Symbol: Gm5087
Name: predicted gene 5087
RGD ID: 1617979
MGI Page MGI
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: C630025C03; EG328354; hypothetical protein LOC328354; uncharacterized protein LOC328354
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39149,185,125 - 9,312,375 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl149,185,125 - 9,312,375 (+)EnsemblGRCm39 Ensembl
GRCm381413,157,388 - 13,284,638 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1413,157,388 - 13,284,638 (-)EnsemblGRCm38mm10GRCm38
MGSCv371413,989,902 - 14,117,152 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361411,950,655 - 12,077,905 (-)NCBIMGSCv36mm8
Celera148,808,852 - 8,928,109 (-)NCBICelera
Cytogenetic Map14A1NCBI
cM Map146.86NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068  


Genomics

Variants

.
Variants in Gm5087
4779 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:396
Count of miRNA genes:312
Interacting mature miRNAs:336
Transcripts:ENSMUST00000060526, ENSMUST00000140967, ENSMUST00000161835
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
10412071Ssen3_msuseptibility to Sendai virus 3 (mouse)Not determined14126987934Mouse
11532711Sluc40_msusceptibility to lung cancer 40 (mouse)14127379943Mouse
13824988Phsq1_mpercent hyperactivated sperm QTL 1 (mouse)14305000119469772Mouse
1301991Wta3_mweight adult 3 (mouse)Not determined14388747337887650Mouse
4141550Dbm3_mdiabetes modifier 3 (mouse)Not determined514347339143596Mouse
4141265Appd2_mAPP associated premature death 2 (mouse)Not determined14594555230114862Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000060526
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl149,185,125 - 9,312,375 (+)Ensembl
GRCm38.p6 Ensembl1413,157,388 - 13,284,638 (-)Ensembl
RefSeq Acc Id: ENSMUST00000140967
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl149,185,133 - 9,206,630 (+)Ensembl
GRCm38.p6 Ensembl1413,263,133 - 13,284,630 (-)Ensembl
RefSeq Acc Id: ENSMUST00000161835
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl149,298,861 - 9,311,189 (+)Ensembl
GRCm38.p6 Ensembl1413,158,574 - 13,170,902 (-)Ensembl
RefSeq Acc Id: ENSMUST00000225820
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl149,299,045 - 9,311,189 (+)Ensembl
GRCm38.p6 Ensembl1413,158,574 - 13,170,718 (-)Ensembl
RefSeq Acc Id: NR_121588
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39149,185,125 - 9,312,375 (+)NCBI
GRCm381413,157,388 - 13,284,638 (-)NCBI
Celera148,808,852 - 8,928,109 (-)NCBI
Sequence:
RefSeq Acc Id: NR_121589
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39149,185,125 - 9,206,630 (+)NCBI
GRCm381413,263,133 - 13,284,638 (-)NCBI
Celera148,808,852 - 8,928,109 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein AAI47067 (Get FASTA)   NCBI Sequence Viewer  
  BAC38804 (Get FASTA)   NCBI Sequence Viewer  
  EDL20612 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:8681516
Promoter ID:EPDNEW_M18789
Type:single initiation site
Name:Gm5087_1
Description:Mus musculus predicted gene 5087 , transcript variant 2, longnon-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M18790  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381413,232,898 - 13,232,958EPDNEW
RGD ID:8681518
Promoter ID:EPDNEW_M18790
Type:multiple initiation site
Name:Gm5087_2
Description:Mus musculus predicted gene 5087 , transcript variant 2, longnon-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M18789  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381413,284,640 - 13,284,700EPDNEW
RGD ID:15094388
Promoter ID:EPDNEWNC_M2297
Type:multiple initiation site
Name:Gm5087_1
Description:predicted gene 5087 [Source:MGI Symbol;Acc:MGI:3643653]
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
GRCm381413,284,640 - 13,284,700EPDNEWNC
RGD ID:6825021
Promoter ID:MM_KWN:15690
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:NM_028052,   NM_177813,   OTTMUST00000068742
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361414,116,836 - 14,117,336 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000051729 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000060526 ENTREZGENE
  ENSMUST00000140967 ENTREZGENE
MGD MGI:3643653 ENTREZGENE
NCBI Gene 328354 ENTREZGENE
PANTHER ENDOGENOUS RETROVIRUS GROUP K MEMBER 113 ENV POLYPROTEIN-RELATED UniProtKB/TrEMBL
  ENDOGENOUS RETROVIRUS GROUP K MEMBER 113 ENV POLYPROTEIN-RELATED UniProtKB/TrEMBL
PhenoGen Gm5087 PhenoGen
RNAcentral URS000075AF14 RNACentral
  URS000075D4E2 RNACentral
UniProt Q8C427_MOUSE UniProtKB/TrEMBL