Transcript 36055 | MetamORF

Transcript

ID CARD

MetamORF ID

36055

ENSMUST00000132397

Name

Gm20517-202

Strand

Biotype

nonsense_mediated_decay

Start-end positions

47611613-47683861

CDS Start-stop positions

47611679-47672079

CDS Relative positions

Sequences

Transcript sequence

GTT ...

Genome browsers

UCSC

Gene

NCBI:112694759

Aliases

ENSMUSG00000023984,
Gm20517, Med20, MGI:5141982,
NCBI:112694759, OFF:Gm20517, Trfp

Chr 17

ORFs

35 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.
38381	171	CTG ...	LLE ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell, E14, MEF, Neutrophil, R1E, Testis, v6-5
38248	39	TTG ...	LEA ...	Ribo-seq	TTG	strong	3	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	MEF, Testis, v6-5
36595	69	GTG ...	VKV ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
1626405	177	CTG ...	LRA ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
37194	96	CTG ...	LEM ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, R1E, Testis, v6-5
36090	198	GTG ...	VVA ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, Neutrophil, R1E, Testis, v6-5
36054	63	GTG ...	VGT ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
479296	45	TTG ...	LRP ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E
38494	222	CTG ...	LSC ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis, v6-5
479705	30	ATG ...	MRS ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, R1E
37124	117	GTG ...	VEL ...	Ribo-seq	GTG		6	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, R1E, Testis, v6-5
954601	93	CTG ...	LES ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	MEF, v6-5
708981	45	TTG ...	LGT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E
1863333	78	CTG ...	LSE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	R1E
480657	48	ATG ...	MAL ...	Ribo-seq	ATG	strong	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC, v6-5
480900	30	CTG ...	LTP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
36535	162	GTG ...	VSQ ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, Testis, v6-5
795890	198	GTG ...	VCP ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1190745	81	ATG ...	MFP ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC
1152662	84	CTG ...	LSS ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	MEF, v6-5
1627220	216	TTG ...	LAL ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
479468	63	TTG ...	LPS ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1625749	183	CTG ...	LWL ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1863257	48	GTG ...	VHS ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
36874	72	CTG ...	LVK ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
36107	153	GTG ...	VKL ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
37116	216	GTG ...	VEY ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, Neutrophil, R1E, Testis, v6-5
38444	57	GTG ...	VDC ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, R1E, Testis
36940	255	CTG ...	LMY ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis, v6-5
37289	147	GTG ...	VAE ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, Testis, v6-5
482800	63	GTG ...	VPR ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E
1626163	210	TTG ...	LCF ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
37644	162	GTG ...	VLM ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
37475	195	GTG ...	VAS ...	Ribo-seq	GTG		7	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell, E14, MEF, Neutrophil, R1E, Testis, v6-5
37715	246	GTG ...	VMH ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis, v6-5

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