Transcript 3499 | MetamORF

Transcript

ID CARD

MetamORF ID

3499

ENSMUST00000026470

Name

Shmt2-201

Strand

Biotype

protein_coding

Start-end positions

127517139-127522444

CDS Start-stop positions

127517789-127522320

CDS Relative positions

Sequences

Transcript sequence

CTC ...

Genome browsers

UCSC

Gene

NCBI:108037

Aliases

2700043D08Rik,
AA408223, AA986903, ENSMUSG00000025403,
MGI:1277989, NCBI:108037, OFF:Shmt2,
SHMT, Shmt2

Chr 10

ORFs

47 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.
638433	144	CTG ...	LRS ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, E14, Liver
173312	33	CTG ...	LAS ...	Ribo-seq	CTG	strong	5	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, Liver, MEF, Spleen_B_cell
607832	51	TTG ...	LPG ...	Ribo-seq	TTG	moderate	5	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	3T3, E14, Liver, MEF, v6-5
514387	33	TTG ...	LDG ...	Ribo-seq	TTG	strong	8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, MEF, Neutrophil, Spleen_B_cell, v6-5
5873	75	GTG ...	VGA ...	Ribo-seq	GTG		15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, NSC, R1E, Skin_tumor, Spleen_B_cell, v6-5
1085459	63	CTG ...	LHP ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	E14, v6-5
429289	51	CTG ...	LSW ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	Spleen_B_cell
1670869	30	CTG ...	LDL ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	MEF
521802	144	CTG ...	LTP ...	Ribo-seq	CTG	moderate	10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
530272	36	CTG ...	LET ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Spleen_B_cell
636007	63	ATG ...	MSS ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Liver
431920	66	GTG ...	VRT ...	Ribo-seq	GTG	weak	5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver, MEF, Neutrophil, NSC, Spleen_B_cell
525595	75	CTG ...	LRC ...	Ribo-seq	CTG		16	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
442317	102	CTG ...	LMS ...	Ribo-seq	CTG		7	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, E14, Liver, Spleen_B_cell, v6-5
529293	36	GTG ...	VPM ...	Ribo-seq	GTG	weak	6	sORFs_org_Mouse	InCDS Overlapping sORF	E14, Liver, Spleen_B_cell, v6-5
438440	99	ATG ...	MSS ...	Ribo-seq	ATG		6	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, E14, Liver, Spleen_B_cell, v6-5
444871	84	ATG ...	MLL ...	Ribo-seq	ATG		12	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, E14, Glioma, Liver, MEF, MESC, R1E, Spleen_B_cell, v6-5
524747	117	CTG ...	LEV ...	Ribo-seq	CTG		11	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Liver, MEF, Neutrophil, Spleen_B_cell, v6-5
427576	30	ATG ...	MRE ...	Ribo-seq	ATG	weak	6	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC, NSC, Spleen_B_cell, v6-5
533811	75	TTG ...	LRT ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	Spleen_B_cell
1835789	186	ATG ...	MPC ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, R1E
6039	42	GTG ...	VSR ...	Ribo-seq	GTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, MEF, Skin_tumor, Spleen_B_cell
435601	189	GTG ...	VVS ...	Ribo-seq	GTG		13	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
435819	78	ATG ...	MAT ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Liver, Spleen_B_cell
508080	45	CTG ...	LAR ...	Ribo-seq	CTG	moderate	6	sORFs_org_Mouse	InCDS Overlapping sORF	E14, Liver, MEF, Spleen_B_cell, v6-5
1235805	39	ATT ...	ILS ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
444776	81	TTG ...	LLP ...	Ribo-seq	TTG		11	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, R1E, Spleen_B_cell, v6-5
436782	30	ATG ...	MPA ...	Ribo-seq	ATG	weak	5	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, Spleen_B_cell, v6-5
3498	81	GTG ...	VTL ...	Ribo-seq	GTG		15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, v6-5
437599	168	CTG ...	LPG ...	Ribo-seq	CTG		13	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
529448	129	CTG ...	LGK ...	Ribo-seq	CTG		12	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
424805	99	CTG ...	LAK ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Spleen_B_cell
1269232	129	AGG ...	RIS ...	Ribo-seq	AGG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
424111	99	ATG ...	MEP ...	Ribo-seq	ATG	moderate	6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, MEF, Spleen_B_cell
1281863	75	AGG ...	RAH ...	Ribo-seq	AGG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
441002	153	CTG ...	LVA ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, MEF, Neutrophil, R1E, Spleen_B_cell
1268898	63	AGG ...	RWN ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
566433	66	CTG ...	LMS ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, Liver
515508	114	ATG ...	MWS ...	Ribo-seq	ATG	moderate	14	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Glioma, Liver, MEF, MESC, NSC, Spleen_B_cell, v6-5
445187	141	CTG ...	LPS ...	Ribo-seq	CTG		13	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
1263462	105	AAG ...	KTQ ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
887638	168	CTG ...	LVK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	Liver
445308	114	ATG ...	MAT ...	Ribo-seq	ATG		9	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, Spleen_B_cell, v6-5
1264945	72	AAG ...	KPA ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
534026	150	GTG ...	VAL ...	Ribo-seq	GTG	moderate	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
531821	99	CTG ...	LHG ...	Ribo-seq	CTG	moderate	10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, Spleen_B_cell, v6-5
425823	30	CTG ...	LPA ...	Ribo-seq	CTG	moderate	6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, Spleen_B_cell

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