TSS: Rfmm 100038.1: Difference between revisions

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{{TSSDetailV4
{{TSSDetailV4
|annotation=promoter-TSS (ENSMUST00000020350.15)
|all_trans=ENSMUST00000105272.8:0 ENSMUST00000149008.2:0 ENSMUST00000129309.2:0 AK047873:0 AK134981:0 ENSMUST00000020350.15:-12 NM_010195.2:-12 AK132387:-12 BC156649:243 ENSMUST00000172806.8:247 ENSMUST00000173740.2:247 AF110818:247
|annotation=promoter-TSS (NM_010195.2)
|ccre_category=PLS
|ccre_category=PLS
|ccre_description=PLS,CTCF-bound (EM10D2342091,EM10E0964639)
|ccre_description=PLS,CTCF-bound (EM10D2342091,EM10E0964639)
|chr=chr10
|chr=chr10
|cpg_percent=0.035714
|cpg_percent=0.035714
|detailed_annotation=protein_coding-promoter-TSS (ENSMUST00000020350.15)
|detailed_annotation=-promoter-TSS (NM_010195.2)
|distance=0
|distance=0
|distance_to_tss=5
|distance_to_tss=26
|end=115423673
|end=115423673
|entrez_id=ENSMUSG00000020140
|entrez_id=Lgr5
|focus_ratio=NA
|focus_ratio=NA
|gc_percent=0.620690
|gc_percent=0.620690
Line 19: Line 20:
|gene_symbol=Lgr5
|gene_symbol=Lgr5
|gene_synonyms=Gpr49
|gene_synonyms=Gpr49
|gene_type=protein_coding
|gene_type=
|hgnc_mgi_id=MGI:1341817
|hgnc_mgi_id=MGI:1341817
|methods=CAGE{{!}}TSS_database{{!}}CAGE_and_CAGEscan
|nearest_ensembl=
|nearest_ensembl=
|nearest_promoter_id=ENSMUST00000105272.8
|nearest_promoter_id=NM_010195.2
|nearest_refseq=
|nearest_refseq=
|nearest_unigene=ENSMUST00000129309
|nearest_transcripts=ENSMUST00000020350.15:-12 NM_010195.2:-12 AK132387:-12 BC156649:243 ENSMUST00000172806.8:247 ENSMUST00000173740.2:247 AF110818:247
|nearest_unigene=NM_010195
|peak_score=1
|peak_score=1
|reftss_version=4
|reftss_version=4
|source_datasets=FANTOM5{{!}}EPD{{!}}DRA000914
|species=mouse
|species=mouse
|start=115423644
|start=115423645
|strand=-
|strand=-
|tata_box=
|tata_box=

Latest revision as of 16:43, 18 March 2025

Basic information about the TSS

TSS ID:rfmm_100038.1
Species:mouse
Chr:chr10
Start:115423645
End:115423673
Strand:-
Source datasetsFANTOM5|EPD|DRA000914
ProtocolCAGE|TSS_database|CAGE_and_CAGEscan
TSS cluster detected*3

  * The number of TSS cluster called data-sets (maximum 5)


cCREs annotation

Description:PLS,CTCF-bound (EM10D2342091,EM10E0964639)
Category:PLS

  * cCREs are candidates for cis regulatory elements generated from the subset of representative DNase hypersensitivity sites supported by either histone modifications or CTCF-binding data. Find more details here.



Gene and protein annotation

Nearest transcript id and distance:ENSMUST00000105272.8:0
ENSMUST00000149008.2:0
ENSMUST00000129309.2:0
AK047873:0
AK134981:0
GeneID:14160
HGNC/MGI_ID:MGI:1341817
UniProt_ID:Q8C8A7
Nearer transcript ids and distances:
  • ENSMUST00000020350.15:-12
  • NM_010195.2:-12
  • AK132387:-12
  • BC156649:243
  • ENSMUST00000172806.8:247
  • ENSMUST00000173740.2:247
  • AF110818:247
view more...
Gene_name:leucine rich repeat containing G protein coupled receptor 5
Gene_symbol:Lgr5
Gene_synonyms:Gpr49
Gene_source:MGI:1341817



TATA-Box annotation

Distance to TSS:26
Nearest PromoterID:NM_010195.2
Entrez ID:Lgr5
Nearest Unigene:NM_010195
Nearest Refseq:
Nearest Ensembl:
Gene Name:leucine rich repeat containing G protein coupled receptor 5
Gene Alias:
Gene Type:
CpG%:0.035714
GC%:0.620690
TATA-Box(TBP)/Promoter/Homer Distance From Peak(sequence,strand,conservation):



TSS expression

Expression data not found.
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