Transcript 2616 | MetamORF

Transcript

ID CARD

MetamORF ID

2616

ENST00000605204

Name

SRSF4-206

Strand

Biotype

nonsense_mediated_decay

Start-end positions

29154736-29181890

CDS Start-stop positions

29166009-29181752

CDS Relative positions

Sequences

Transcript sequence

GTA ...

Genome browsers

UCSC

Gene

HGNC:10786

Aliases

ENSG00000116350,
HGNC:10786, NCBI:6429, OFF:SRSF4,
SFRS4, SRP75, SRSF4

Chr 1

ORFs

32 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.
901599	165	GAT ...	DAV ...	Ribo-seq	GAT		1	sORFs_org_Human	Alternative Downstream NMD sORF	Jurkat
901631	78	CAG ...	QAR ...	Ribo-seq	CAG		1	sORFs_org_Human	InCDS NMD Overlapping sORF	Jurkat
2657	39	ATG ...	MIC ...	Ribo-seq	ATG	weak	24	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, RPE-1
901616	81	CGG ...	RED ...	Ribo-seq	CGG		1	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	Jurkat
2688	102	GTG ...	VYI ...	Ribo-seq	GTG		24	sORFs_org_Human	InCDS NMD Overlapping 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
407185	75	TTA ...	LVE ...	Ribo-seq	TTA		1	sORFs_org_Human	NMD sORF	HCT116
2659	42	TTG ...	LMI ...	Ribo-seq	TTG	moderate	20	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, Flp-In_T-REx-293, HEK293, HEK293T, HeLa, hES, LCL, MDA-MB-231, RPE-1
407215	60	TCT ...	SEE ...	Ribo-seq	TCT		2	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HCT116, Jurkat
2651	180	CTG ...	LRD ...	Ribo-seq	CTG		13	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, guo_2014, HEK293, HEK293T, hES, HFF, MM1S, RPE-1
2680	57	ATG ...	MVL ...	Ribo-seq	ATG	strong	19	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, LCL, MDA-MB-231, RPE-1
407179	66	GAC ...	DKP ...	Ribo-seq	GAC		2	sORFs_org_Human	NMD sORF	HCT116, Jurkat
2661	195	GTG ...	VEF ...	Ribo-seq	GTG		18	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, guo_2014, HEK293, HEK293T, HeLa, hES, HFF, MM1S, RPE-1, U2OS
2670	51	TTG ...	LWS ...	Ribo-seq	TTG	moderate	21	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, RPE-1
285883	30	CTG ...	LKS ...	Ribo-seq	CTG	moderate	9	sORFs_org_Human	Alternative Downstream NMD sORF	Blood, HEK293, HeLa, LCL, MDA-MB-231, RPE-1
901652	186	TGC ...	CVR ...	Ribo-seq	TGC	strong	1	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	Jurkat
101277	30	GTG ...	VMQ ...	Ribo-seq	GTG	weak	19	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, HEK293, HEK293T, HeLa, hES, HFF, MDA-MB-231, RPE-1
2682	60	GTG ...	VER ...	Ribo-seq	GTG		25	sORFs_org_Human	InCDS NMD Overlapping sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
407220	78	GAA ...	EDP ...	Ribo-seq	GAA		1	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HCT116
635539	99	GTG ...	VLS ...	Ribo-seq	GTG	moderate	11	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	BJ, HEK293, HeLa, hES, MM1S, RPE-1, THP-1
2684	51	ATG ...	MWS ...	Ribo-seq	ATG	moderate	22	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1
1296657	162	TTG ...	LPP ...	Ribo-seq	TTG	weak	4	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	HEK293, HEK293T, MM1S, RPE-1
481473	36	TTG ...	LPG ...	Ribo-seq	TTG	weak	18	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HEK293T, HeLa, hES, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
2615	33	ATG ...	MLT ...	Ribo-seq	ATG	weak	14	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, hES, LCL, MDA-MB-231, RPE-1, THP-1
901644	75	TGC ...	CRD ...	Ribo-seq	TGC	weak	1	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	Jurkat
901601	192	GAG ...	EFD ...	Ribo-seq	GAG		1	sORFs_org_Human	Alternative Downstream NMD sORF	Jurkat
901612	69	GGA ...	GGG ...	Ribo-seq	GGA		1	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	Jurkat
635541	147	CTG ...	LPP ...	Ribo-seq	CTG	weak	7	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	BJ, HEK293, HEK293T, MDA-MB-231, MM1S, RPE-1, THP-1
901637	60	GGT ...	GVH ...	Ribo-seq	GGT	strong	1	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	Jurkat
481476	42	CTG ...	LPL ...	Ribo-seq	CTG	weak	19	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HEK293T, HeLa, hES, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
2621	39	ATG ...	MQM ...	Ribo-seq	ATG	weak	16	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, LCL, MDA-MB-231, RPE-1
2686	87	CTG ...	LSY ...	Ribo-seq	CTG		24	sORFs_org_Human	InCDS NMD Overlapping 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
285885	36	ATG ...	MEL ...	Ribo-seq	ATG	moderate	10	sORFs_org_Human	Alternative Downstream NMD sORF	Blood, HEK293, HeLa, LCL, MDA-MB-231, RPE-1

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