Transcript 5447 | MetamORF

Transcript

ID CARD

MetamORF ID

5447

ENST00000534765

Name

SF3B2-216

Strand

Biotype

retained_intron

Start-end positions

66064641-66068674

CDS Start-stop positions

CDS Relative positions

Sequences

Transcript sequence

TAT ...

Genome browsers

UCSC

Gene

HGNC:10769

Aliases

Cus1,
ENSG00000087365, HGNC:10769, NCBI:10992,
OFF:SF3B2, SAP145, SF3b1,
SF3b145, SF3B2

Chr 11

ORFs

28 ORFs

MetamORF ORF ID The MetamORF ID of the ORF. This is an unique ID referring to the ORF.	ORF lenght The genomic length of the ORF (in bp). This length is defined as the sum of the lengths of each exon constituting the ORF (thus excluding its eventual introns) and includes both the start and the stop codons.	Nucleic sequence The nucleic sequence of the ORF.	Amino acid sequence The amino acid sequence of the ORF.	Identification The method of identification used to identify the ORF. MetamORF currently integrates data from three main type of identification methods: bioinformatic predictions, ribosome profiling experiments and mass spectrometry experiments (either proteomics or proteogenomics). See the data sources section of the advances documentation for more information about this.	Start codon The start codon sequence of the ORF.	Kozak context The Kozak context computed by our algorithm for the ORF on the transcript. See the Kozak contexts section of the advanced documentation for more details regarding the nomenclature we use.	Exp. count The number of original datasets that identifed the ORF on the transcript.	Data sources The data sources in which the ORF has been identified. Click on the button to display all the original IDs in a pop-up. See the data sources section of the advanced documentation for more details regarding the information related to the data sources and the original ORF IDs.	ORF annotations A comma-separated list of the annotations computed by our algorithm for the ORF on the transcript. See the section dedicated to ORF annotations in the advanced documentation for more details regarding the nomenclature we use.	Cell types A comma-separated list of the cell types in which the ORF has already been identified on the transcript.
5459	39	GTG ...	VTW ...	Ribo-seq	GTG	weak	24	sORFs_org_Human	Intronic sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HCT116, HEK293, HEK293T, HeLa, hES, HFF, Jurkat, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, U2OS
5446	66	GTG ...	VRH ...	Ribo-seq	GTG	moderate	23	sORFs_org_Human	Intronic sORF	BJ, Blood, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
910007	45	CAT ...	HVH ...	Ribo-seq	CAT		1	sORFs_org_Human	Intronic sORF	Jurkat
408270	102	GTT ...	VGG ...	Ribo-seq	GTT		3	sORFs_org_Human	Intronic sORF	HCT116, HEK293, Jurkat
5457	36	ATG ...	MRS ...	Ribo-seq	ATG	moderate	23	sORFs_org_Human	Intronic sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
3200686	54	GAA ...	EEN ...	Ribo-seq	GAA	strong	1	sORFs_org_Human	Intronic sORF	HEK293
102953	129	GTG ...	VLP ...	Ribo-seq	GTG		14	sORFs_org_Human	Intronic sORF	Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF
5449	45	CTG ...	LCC ...	Ribo-seq	CTG	weak	21	sORFs_org_Human	Intronic sORF	BJ, Blood, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
3200689	69	TAT ...	YDM ...	Ribo-seq	TAT		1	sORFs_org_Human	Intronic sORF	HEK293
910003	54	AGC ...	SSS ...	Ribo-seq	AGC	weak	2	sORFs_org_Human	Intronic sORF	HEK293, Jurkat
408268	120	GAG ...	EKR ...	Ribo-seq	GAG		2	sORFs_org_Human	Intronic sORF	HCT116, Jurkat
3200697	36	GAA ...	EGR ...	Ribo-seq	GAA	strong	1	sORFs_org_Human	Intronic sORF	HEK293
408274	297	CAG ...	QKY ...	Ribo-seq	CAG	moderate	3	sORFs_org_Human	Intronic sORF	HCT116, HEK293, Jurkat
102955	126	TTG ...	LPE ...	Ribo-seq	TTG		13	sORFs_org_Human	Intronic sORF	Brain, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF
530156	96	TTG ...	LGL ...	Ribo-seq	TTG	moderate	8	sORFs_org_Human	Intronic sORF	BJ, HAP1, HEK293, HeLa, HFF, MM1S, U2OS
530158	90	CTG ...	LIP ...	Ribo-seq	CTG	moderate	10	sORFs_org_Human	Intronic sORF	BJ, Blood, HAP1, HEK293, HeLa, HFF, MM1S, RPE-1, U2OS
408278	54	AGA ...	RRR ...	Ribo-seq	AGA	weak	2	sORFs_org_Human	Intronic sORF	HCT116, Jurkat
408276	48	GCA ...	ACA ...	Ribo-seq	GCA	moderate	2	sORFs_org_Human	Intronic sORF	HCT116, Jurkat
3200684	66	TGT ...	CVA ...	Ribo-seq	TGT	moderate	1	sORFs_org_Human	Intronic sORF	HEK293
5451	66	CTG ...	LSC ...	Ribo-seq	CTG	weak	21	sORFs_org_Human	Intronic sORF	BJ, Blood, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
408272	93	GCC ...	AMM ...	Ribo-seq	GCC		1	sORFs_org_Human	Intronic sORF	HCT116
5455	33	CTG ...	LKS ...	Ribo-seq	CTG	weak	22	sORFs_org_Human	Intronic sORF	BJ, Blood, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
910001	147	ACA ...	TPQ ...	Ribo-seq	ACA		2	sORFs_org_Human	Intronic sORF	HEK293, Jurkat
910012	276	CGG ...	REQ ...	Ribo-seq	CGG	strong	2	sORFs_org_Human	Intronic sORF	HEK293, Jurkat
5453	54	GTG ...	VWK ...	Ribo-seq	GTG	moderate	22	sORFs_org_Human	Intronic sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
3200691	78	AGG ...	RAR ...	Ribo-seq	AGG	strong	1	sORFs_org_Human	Intronic sORF	HEK293
287911	81	TTG ...	LSF ...	Ribo-seq	TTG	weak	16	sORFs_org_Human	Intronic sORF	BJ, Blood, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, U2OS
3200682	135	TTC ...	FTV ...	Ribo-seq	TTC		1	sORFs_org_Human	Intronic sORF	HEK293

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