TSS: Rfhg 127008.1: Difference between revisions
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{{TSSDetailV4 | {{TSSDetailV4 | ||
|annotation=promoter-TSS ( | |all_trans=ENST00000624354.3:0 ENST00000372755.7:0 ENST00000478896.2:0 ENST00000211998.10:0 NM_014000.3:0 NM_003373.4:0 AK304823:0 EU794673:0 LF384967:0 MA620544:0 AK300280:0 AK296509:0 LF333168:0 MA568745:0 BC099919:0 BC039174:0 GQ900900:0 M33308:0 AB385172:0 DQ894680:0 LF209953:-20 MA445530:-20 | ||
|annotation=promoter-TSS (NM_003373) | |||
|ccre_category=N | |ccre_category=N | ||
|ccre_description=N | |ccre_description=N | ||
|chr=chr10 | |chr=chr10 | ||
|cpg_percent=0.121212 | |cpg_percent=0.121212 | ||
|detailed_annotation= | |detailed_annotation=promoter-TSS (NM_003373) | ||
|distance=0 | |distance=0 | ||
|distance_to_tss=100 | |distance_to_tss=100 | ||
|end=73998348 | |end=73998348 | ||
|entrez_id= | |entrez_id=7414 | ||
|focus_ratio=NA | |focus_ratio=NA | ||
|gc_percent=0.667925 | |gc_percent=0.667925 | ||
|gene_alias= | |gene_alias=CMD1W{{!}}CMH15{{!}}HEL114{{!}}MV{{!}}MVCL | ||
|gene_description= | |gene_description=vinculin | ||
|gene_id=7414 | |gene_id=7414 | ||
|gene_name=vinculin | |gene_name=vinculin | ||
| Line 19: | Line 20: | ||
|gene_symbol=VCL | |gene_symbol=VCL | ||
|gene_synonyms= | |gene_synonyms= | ||
|gene_type= | |gene_type=protein-coding | ||
|hgnc_mgi_id=HGNC:12665 | |hgnc_mgi_id=HGNC:12665 | ||
|nearest_ensembl= | |methods=CAGE{{!}}TSS_database{{!}}RAMPAGE{{!}}SLIC_CAGE{{!}}ReCappable-seq{{!}}TIF-seq2{{!}}NETCAGE{{!}}C1CAGE{{!}}STRIPE-seq{{!}}oligo_capping | ||
|nearest_promoter_id= | |nearest_ensembl=ENSG00000035403 | ||
|nearest_refseq= | |nearest_promoter_id=NM_003373 | ||
|nearest_unigene= | |nearest_refseq=NM_003373 | ||
|nearest_transcripts=LF209953:-20 MA445530:-20 | |||
|nearest_unigene=Hs.643896 | |||
|peak_score=1 | |peak_score=1 | ||
|reftss_version=4 | |reftss_version=4 | ||
|source_datasets=FANTOM5{{!}}EPD{{!}}DRA000914{{!}}ENCODE{{!}}RAMPAGE{{!}}PRJNA401781{{!}}PRJNA615891{{!}}PRJNA548673{{!}}PRJNA4843412{{!}}DRA013844{{!}}PRJDB5282{{!}}PRJNA597322 | |||
|species=human | |species=human | ||
|start= | |start=73998084 | ||
|strand=+ | |strand=+ | ||
|tata_box= | |tata_box= | ||
|transcript_name=ENST00000624354.3 ENST00000372755.7 ENST00000478896.2 ENST00000211998.10 AK304823 EU794673 AK300280 AK296509 BC039174 GQ900900 M33308 AB385172 DQ894680 | |transcript_name=ENST00000624354.3 ENST00000372755.7 ENST00000478896.2 ENST00000211998.10 AK304823 EU794673 AK300280 AK296509 BC039174 GQ900900 M33308 AB385172 DQ894680 | ||
|tss_cluster_detected=16 | |||
|tss_id=rfhg_127008.1 | |tss_id=rfhg_127008.1 | ||
|tss_id_v3=hg_105573.1;hg_105574.1 | |tss_id_v3=hg_105573.1;hg_105574.1 | ||
Latest revision as of 19:25, 13 March 2025
Basic information about the TSS
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| Source datasets | FANTOM5|EPD|DRA000914|ENCODE|RAMPAGE|PRJNA401781 |PRJNA615891|PRJNA548673|PRJNA4843412|DRA013844|PRJDB5282 |PRJNA597322 | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Protocol | CAGE|TSS_database|RAMPAGE|SLIC_CAGE|ReCappable-seq|TIF-seq2 |NETCAGE|C1CAGE|STRIPE-seq|oligo_capping | |||||||||||||||
| TSS cluster detected* | 16 | |||||||||||||||
* The number of TSS cluster called data-sets (maximum 17)
cCREs annotation
| Description: | - |
|---|---|
| Category: | - |
* 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
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TATA-Box annotation
| Distance to TSS: | 100 |
|---|---|
| Nearest PromoterID: | NM_003373 |
| Entrez ID: | 7414 |
| Nearest Unigene: | Hs.643896 |
| Nearest Refseq: | NM_003373 |
| Nearest Ensembl: | ENSG00000035403 |
| Gene Name: | vinculin |
| Gene Alias: | CMD1W|CMH15|HEL114|MV|MVCL |
| Gene Type: | protein-coding |
| CpG%: | 0.121212 |
| GC%: | 0.667925 |
| TATA-Box(TBP)/Promoter/Homer Distance From Peak(sequence,strand,conservation): |
TSS expression
Expression data not found.