Transcript 136 | MetamORF

Transcript

ID CARD

MetamORF ID

136

ENST00000459894

Name

SFXN2-202

Strand

Biotype

nonsense_mediated_decay

Start-end positions

102714636-102739189

CDS Start-stop positions

102724968-102729798

CDS Relative positions

Sequences

Transcript sequence

AGT ...

Genome browsers

UCSC

Gene

HGNC:16086

Aliases

ENSG00000156398,
HGNC:16086, NCBI:118980, OFF:SFXN2,
SFXN2, SLC56A2

Chr 10

ORFs

21 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.
898636	78	GAA ...	EPK ...	Ribo-seq	GAA	weak	1	sORFs_org_Human	Downstream NMD sORF	Jurkat
3300547	561	ATG ...	MMY ...	Ribo-seq	ATG		1	Johnstone2016	CDS NMD	Brain_tumor, HEK293, HeLa, HFF
2539706	30	CTG ...	LRL ...	Ribo-seq	CTG	weak	2	sORFs_org_Human	Alternative CDS NMD sORF	HEK293, hES
142	48	GTG ...	VAA ...	Ribo-seq	GTG		8	sORFs_org_Human	Downstream NMD Overlapping sORF	HEK293, hES, MDA-MB-231
140	63	GTG ...	VPF ...	Ribo-seq	GTG		9	sORFs_org_Human	Downstream NMD Overlapping sORF	HEK293, hES, MDA-MB-231
144	42	CTG ...	LHA ...	Ribo-seq	CTG		8	sORFs_org_Human	Downstream NMD sORF	HEK293, hES, MDA-MB-231
135	78	TTG ...	LVG ...	Ribo-seq	TTG		7	sORFs_org_Human	Downstream NMD Overlapping sORF	HEK293, hES, MDA-MB-231
98543	66	GTG ...	VPV ...	Ribo-seq	GTG		2	sORFs_org_Human	Alternative Downstream NMD sORF	HEK293
2302496	33	CTG ...	LGA ...	Ribo-seq	CTG	moderate	1	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	MDA-MB-231
277961	42	ATG ...	MSS ...	Ribo-seq	ATG	weak	1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Brain_tumor, HEK293, HeLa, HFF
98538	30	ATG ...	MKM ...	Ribo-seq	ATG		2	sORFs_org_Human	Alternative Downstream NMD sORF	HEK293, MDA-MB-231
98545	60	GTG ...	VAC ...	Ribo-seq	GTG		1	sORFs_org_Human	Alternative Downstream NMD sORF	HEK293
405193	81	ATT ...	IGH ...	Ribo-seq	ATT		1	sORFs_org_Human	Downstream NMD sORF	HCT116
146	30	TTG ...	LQV ...	Ribo-seq	TTG		6	sORFs_org_Human	Downstream NMD sORF	HEK293, hES
2539701	42	TTG ...	LPL ...	Ribo-seq	TTG	weak	1	sORFs_org_Human	Alternative CDS NMD sORF	HEK293
138	75	GTG ...	VGR ...	Ribo-seq	GTG		7	sORFs_org_Human	Downstream NMD Overlapping sORF	HEK293, hES, MDA-MB-231
98547	96	TTG ...	LPV ...	Ribo-seq	TTG	moderate	7	sORFs_org_Human	Downstream NMD sORF	HEK293, hES, MDA-MB-231
98549	81	CTG ...	LEP ...	Ribo-seq	CTG	moderate	7	sORFs_org_Human	Downstream NMD sORF	HEK293, hES, MDA-MB-231
2539703	36	CTG ...	LWL ...	Ribo-seq	CTG	weak	2	sORFs_org_Human	Alternative CDS NMD sORF	HEK293, hES
130	54	ATG ...	MPR ...	Ribo-seq	ATG	weak	1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Brain_tumor, HEK293, HeLa, HFF
898634	54	GCA ...	ARP ...	Ribo-seq	GCA		1	sORFs_org_Human	Alternative Downstream NMD sORF	Jurkat

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