TSS: Rfhg 173063.1: Difference between revisions

Revision as of 13:09, 7 December 2023

Basic information about the TSS

TSS ID:	rfhg_173063.1
TSS ID(Version3):	hg_149550.1
Species:	human
Chr:	chr15

Start:	42208227
End:	42208325
Strand:	-

Source datasets

Protocol

TSS cluster detected^*

14

* The number of TSS cluster called data-sets (maximum 17)

cCREs annotation

Description:	PLS,CTCF-bound (EH38D2781459,EH38E1757226)
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:	ENST00000318006.10:0 ENST00000568357.1:0 AB018313:0 AF281052:0 BX537404:0 BC068559:0
GeneID:	23339
HGNC/MGI_ID:	HGNC:20593
UniProt_ID:	A0A024R9L9
Nearer transcript ids and distances:

Gene_name:	VPS39
Gene_symbol:	VPS39
Gene_synonyms:	KIAA0770 VAM6
Gene_source:	HGNC:20593

TATA-Box annotation

Distance to TSS:	28
Nearest PromoterID:	NM_001301138
Entrez ID:	23339
Nearest Unigene:	Hs.88025
Nearest Refseq:	NM_015289
Nearest Ensembl:	ENSG00000166887
Gene Name:	VPS39
Gene Alias:	TLP\|VAM6\|hVam6p
Gene Type:	protein-coding
CpG%:	0.051020
GC%:	0.626263
TATA-Box(TBP)/Promoter/Homer Distance From Peak(sequence,strand,conservation):

TSS expression

Expression data not found.

@@ Line 21: / Line 21: @@
 |gene_type=protein-coding
 |hgnc_mgi_id=HGNC:20593
+|methods=CAGE{{!}}TSS_database{{!}}ReCappable-seq{{!}}oligo_capping{{!}}RAMPAGE{{!}}SLIC_CAGE{{!}}NETCAGE{{!}}STRIPE-seq{{!}}C1CAGE
 |nearest_ensembl=ENSG00000166887
 |nearest_promoter_id=NM_001301138
@@ Line 27: / Line 28: @@
 |peak_score=1
 |reftss_version=4
+|source_datasets=FANTOM5{{!}}EPD{{!}}DRA000914{{!}}ENCODE{{!}}PRJNA548673{{!}}PRJNA401781{{!}}PRJNA615891{{!}}PRJNA4843412{{!}}DRA013844{{!}}PRJNA597322{{!}}PRJDB5282
 |species=human
 |start=42208227
@@ Line 32: / Line 34: @@
 |tata_box=
 |transcript_name=ENST00000318006.10 ENST00000568357.1 AB018313 AF281052 BX537404 BC068559
+|tss_cluster_detected=14
 |tss_id=rfhg_173063.1
 |tss_id_v3=hg_149550.1