Transcript 58838 | MetamORF

Transcript

ID CARD

MetamORF ID

58838

ENSMUST00000105139

Name

Sf3b5-201

Strand

Biotype

protein_coding

Start-end positions

13005343-13009183

CDS Start-stop positions

13008623-13008883

CDS Relative positions

3281-3541

Sequences

Transcript sequence

ATA ...

Genome browsers

UCSC

Gene

NCBI:66125

Aliases

10kDa,
1110005L13Rik, AU043053, ENSMUSG00000078348,
MGI:1913375, NCBI:66125, OFF:Sf3b5,
Sf3b10, Sf3b5

Chr 10

ORFs

20 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.
82783	261	ATG ...	MTD ...	Predicted Ribo-seq	ATG	moderate	21	sORFs_org_Mouse Mackowiak2015 Johnstone2016	CDS sORF	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
512661	42	GTG ...	VAA ...	Ribo-seq	GTG	moderate	8	sORFs_org_Mouse	sORF Upstream	3T3, B_cell, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell
436062	93	CTG ...	LRL ...	Ribo-seq	CTG	weak	6	sORFs_org_Mouse	sORF Upstream	3T3, B_cell, E14, R1E, Spleen_B_cell, v6-5
1082891	87	CTG ...	LCR ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream sORF	v6-5
58837	183	GTG ...	VGM ...	Ribo-seq	GTG	moderate	12	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	3T3, B_cell, Brain, E14, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
1253926	33	ACG ...	TRA ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1275449	120	ATG ...	MER ...	Ribo-seq	ATG	strong	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream sORF	E14, Glioma, Liver, MEF, MESC
200290	39	TTG ...	LNA ...	Ribo-seq	TTG	weak	12	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
417827	33	GTG ...	VAS ...	Ribo-seq	GTG	moderate	8	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, C2C12, E14, MEF, R1E, Spleen_B_cell
83922	36	CTG ...	LTS ...	Ribo-seq	CTG	moderate	19	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
532605	54	CTG ...	LRF ...	Ribo-seq	CTG	moderate	10	sORFs_org_Mouse	sORF Upstream	3T3, B_cell, BMDC, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
1176085	33	ATG ...	MRI ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream sORF	Glioma, Liver, MEF, MESC, v6-5
562318	81	TTG ...	LRG ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, E14, MEF, Neutrophil, R1E
85282	147	CTG ...	LLL ...	Ribo-seq	CTG	weak	12	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	3T3, B_cell, Brain, E14, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
72585	42	TTG ...	LPR ...	Ribo-seq	TTG	weak	18	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
1082793	42	CTG ...	LHE ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream sORF	v6-5
418091	138	CTG ...	LST ...	Ribo-seq	CTG	moderate	8	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, BMDC, C2C12, E14, MEF, R1E
65382	177	ATG ...	MAG ...	Ribo-seq	ATG	strong	14	sORFs_org_Mouse Johnstone2016	Alternative Downstream Overlapping sORF	3T3, B_cell, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
1268703	63	ATC ...	ICS ...	Ribo-seq	ATC	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
526528	63	CTG ...	LHE ...	Ribo-seq	CTG	weak	9	sORFs_org_Mouse	sORF Upstream	3T3, B_cell, BMDC, E14, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5

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