Transcript 12878 | MetamORF

Transcript

ID CARD

MetamORF ID

12878

ENSMUST00000024897

Name

Vapa-201

Strand

Biotype

protein_coding

Start-end positions

65580056-65613555

CDS Start-stop positions

65580689-65613298

CDS Relative positions

Sequences

Transcript sequence

ACG ...

Genome browsers

UCSC

Gene

NCBI:30960

Aliases

33kDa,
ENSMUSG00000024091, MGI:1353561, NCBI:30960,
OFF:Vapa, VAP33, Vapa

Chr 17

ORFs

40 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.
1191487	30	AAG ...	KAQ ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
38062	264	CTG ...	LLS ...	Ribo-seq	CTG		10	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, C2C12, E14, MEF, Neutrophil, Spleen_B_cell, Testis
36552	39	TTG ...	LLH ...	Ribo-seq	TTG		15	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
1194724	87	ATA ...	ISS ...	Ribo-seq	ATA		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
38337	36	GTG ...	VFH ...	Ribo-seq	GTG	moderate	12	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, NSC, Spleen_B_cell, Testis, v6-5
38708	102	ATG ...	MKR ...	Ribo-seq	ATG		12	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
39064	111	ATG ...	MIR ...	Ribo-seq	ATG		16	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
38833	36	GTG ...	VCL ...	Ribo-seq	GTG		13	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, Liver, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
480312	39	GTG ...	VAA ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	Spleen_B_cell
37604	30	GTG ...	VGL ...	Ribo-seq	GTG	strong	10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, Liver, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
12973	33	TTG ...	LKC ...	Ribo-seq	TTG		20	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, Testis, v6-5
38983	117	TTG ...	LIM ...	Ribo-seq	TTG		17	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
1191499	81	ATT ...	IRI ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
37177	69	CTG ...	LDP ...	Ribo-seq	CTG	strong	14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
36951	87	GTG ...	VQA ...	Ribo-seq	GTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, Brain, E14, MEF, NSC, R1E, Spleen_B_cell, Testis
382999	30	CTG ...	LCA ...	Ribo-seq	CTG	moderate	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, NSC, R1E
12987	39	GTG ...	VCL ...	Ribo-seq	GTG		19	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, Testis, v6-5
37564	102	CTG ...	LRC ...	Ribo-seq	CTG		19	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
478448	45	GTG ...	VRV ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	Spleen_B_cell
37268	261	CTG ...	LSG ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, Brain, MEF, Neutrophil, Spleen_B_cell, Testis
39096	63	TTG ...	LLH ...	Ribo-seq	TTG		14	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
954522	60	ACG ...	TDP ...	Ribo-seq	ACG	strong	2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
956630	63	ATA ...	ISS ...	Ribo-seq	ATA		2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
38208	75	ATG ...	MHP ...	Ribo-seq	ATG	weak	16	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, NSC, Spleen_B_cell, Testis, v6-5
1193730	33	ATT ...	ILS ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
480737	72	CTG ...	LPS ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	sORF Upstream	3T3, B_cell, Neutrophil, Spleen_B_cell
1190826	51	ATC ...	IQT ...	Ribo-seq	ATC	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
39273	30	TTG ...	LKC ...	Ribo-seq	TTG		15	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
37995	93	TTG ...	LIM ...	Ribo-seq	TTG		18	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
37888	87	ATG ...	MIR ...	Ribo-seq	ATG		17	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
1192834	48	ATC ...	ILN ...	Ribo-seq	ATC	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
701543	30	TTG ...	LQP ...	Ribo-seq	TTG	weak	6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, v6-5
38639	78	ATG ...	MKR ...	Ribo-seq	ATG		15	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
383028	66	GTG ...	VFQ ...	Ribo-seq	GTG	moderate	15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, NSC, R1E, Spleen_B_cell, v6-5
954583	39	ATA ...	IMS ...	Ribo-seq	ATA	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
38368	45	GTG ...	VCG ...	Ribo-seq	GTG	moderate	15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
1190450	30	ATA ...	IWN ...	Ribo-seq	ATA	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
12877	33	ATG ...	MIW ...	Ribo-seq	ATG	weak	11	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, Glioma, Liver, MEF, MESC, Neutrophil, NSC, Skin_tumor, Spleen_B_cell
1150995	36	ATG ...	MSP ...	Ribo-seq	ATG	moderate	6	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, E14, Glioma, Liver, MEF, MESC, NSC, v6-5
479741	84	GTG ...	VTP ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, Spleen_B_cell

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