Transcript 394024

Transcript

ID CARD

MetamORF ID

394024

ENSMUST00000025393

Name

Smad4-201

Strand

Biotype

protein_coding

Start-end positions

73639009-73703780

CDS Start-stop positions

73640258-73677911

CDS Relative positions

Sequences

Transcript sequence

GAC ...

Genome browsers

UCSC

Gene

NCBI:17128

Aliases

AW743858,
D18Wsu70e, DPC4, ENSMUSG00000024515,
Madh4, MGI:894293, NCBI:17128,
OFF:Smad4, Smad4

Chr 18

ORFs

73 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.
1198400	102	AAG ...	KLP ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
485862	60	CTG ...	LLR ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
1362492	255	ATG ...	MDL ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, E14, Glioma, Liver, MEF, MESC
1362372	114	CTG ...	LDI ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
1196596	57	AGG ...	RRS ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
717743	99	ATG ...	MAM ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC, v6-5
396453	99	GTG ...	VTT ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
485955	60	TTG ...	LVF ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	E14, MEF, Spleen_B_cell
484901	63	CTG ...	LLL ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
394023	33	ATG ...	MLN ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
1155616	84	GTG ...	VHS ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, v6-5
485834	78	CTG ...	LRK ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
1199614	222	ATA ...	ITA ...	Ribo-seq	ATA		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1156730	105	CTG ...	LWM ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, v6-5
1362537	246	CTG ...	LLS ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
1196460	45	ATT ...	ITP ...	Ribo-seq	ATT	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	E14
485207	69	CTG ...	LQL ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
1544264	60	ATG ...	MSL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
485544	57	CTG ...	LLL ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Spleen_B_cell
399586	69	GTG ...	VSP ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, R1E, v6-5
717477	93	ATG ...	MWI ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, R1E, v6-5
1155364	48	CTG ...	LST ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
486780	195	CTG ...	LGR ...	Ribo-seq	CTG		4	sORFs_org_Mouse	Alternative sORF Upstream	3T3, E14, MEF, Spleen_B_cell
485103	123	TTG ...	LIC ...	Ribo-seq	TTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
486072	54	CTG ...	LLL ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Spleen_B_cell
485659	39	GTG ...	VWM ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Spleen_B_cell
485724	51	CTG ...	LLA ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Spleen_B_cell
396447	45	ATG ...	MPV ...	Ribo-seq	ATG	weak	9	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, E14, Glioma, Liver, MEF, MESC, R1E, Spleen_B_cell, v6-5
1362065	81	TTG ...	LRF ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
484649	141	CTG ...	LLT ...	Ribo-seq	CTG	moderate	5	sORFs_org_Mouse	Overlapping sORF Upstream	E14, MEF, Spleen_B_cell
713136	99	ATG ...	MWI ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
716669	54	CTG ...	LAE ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1155379	45	TTG ...	LLG ...	Ribo-seq	TTG	weak	3	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, v6-5
1361908	45	ATG ...	MKS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	E14, Glioma, Liver, MEF, MESC
1157097	90	ATG ...	MSL ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, v6-5
1543719	54	TTG ...	LHS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1156641	84	TTG ...	LHS ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, v6-5
1361668	84	CTG ...	LKD ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
399722	45	ATG ...	MDD ...	Ribo-seq	ATG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, MEF, v6-5
1154698	99	CTG ...	LPC ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, v6-5
1362480	201	CTG ...	LEV ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
485642	75	TTG ...	LQH ...	Ribo-seq	TTG	weak	4	sORFs_org_Mouse	Alternative sORF Upstream	E14, MEF, Spleen_B_cell, v6-5
1198409	279	GTG ...	VFA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	sORF Upstream	E14
1197815	291	GTG ...	VAE ...	Ribo-seq	GTG		1	sORFs_org_Mouse	sORF Upstream	E14
485789	48	CTG ...	LAS ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Spleen_B_cell
1199979	189	CTG ...	LHH ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
1198760	186	GTG ...	VTG ...	Ribo-seq	GTG		1	sORFs_org_Mouse	sORF Upstream	E14
395079	108	TTG ...	LKD ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
397524	36	ATG ...	MSG ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, R1E
399103	42	ATG ...	MSG ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC, R1E
485589	33	ATG ...	MTS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, Spleen_B_cell
486084	102	TTG ...	LTV ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	Alternative sORF Upstream	E14, MEF, R1E, Spleen_B_cell
1157127	45	ATG ...	MST ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, R1E, v6-5
1361519	54	CTG ...	LGP ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
392791	123	GTG ...	VTF ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
716328	105	ATG ...	MAM ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1155097	30	TTG ...	LLT ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
486935	165	GTG ...	VRR ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, E14, MEF, Spleen_B_cell
716808	111	CTG ...	LWM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
396121	126	ATG ...	MST ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, E14, Glioma, Liver, MEF, MESC
1198223	120	ACG ...	TFG ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
395614	81	TTG ...	LAI ...	Ribo-seq	TTG	strong	7	sORFs_org_Mouse	Alternative sORF Upstream	Brain, E14, Liver, MEF, Spleen_B_cell
400460	90	ATG ...	MEL ...	Ribo-seq	ATG		6	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, E14, Glioma, Liver, MEF, MESC, R1E, v6-5
392916	84	TTG ...	LYR ...	Ribo-seq	TTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, Spleen_B_cell
485032	75	CTG ...	LGR ...	Ribo-seq	CTG		2	sORFs_org_Mouse	sORF Upstream	E14, Spleen_B_cell
484777	45	TTG ...	LAA ...	Ribo-seq	TTG	strong	3	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, Spleen_B_cell
1198839	135	AGG ...	RAG ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1543353	162	GTG ...	VSP ...	Ribo-seq	GTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
1198623	75	ATT ...	IGF ...	Ribo-seq	ATT	strong	1	sORFs_org_Mouse	Alternative sORF Upstream	E14
485937	87	CTG ...	LPS ...	Ribo-seq	CTG	weak	4	sORFs_org_Mouse	Overlapping sORF Upstream	E14, MEF, Spleen_B_cell
484746	45	GTG ...	VCH ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, Spleen_B_cell, v6-5
395625	129	GTG ...	VKV ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
712832	33	CTG ...	LFI ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5

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