Transcript 1523 | MetamORF

Transcript

ID CARD

MetamORF ID

1523

ENSMUST00000117280

Name

Smc2-202

Strand

Biotype

protein_coding

Start-end positions

52439243-52488260

CDS Start-stop positions

52440256-52486655

CDS Relative positions

Sequences

Transcript sequence

GAA ...

Genome browsers

UCSC

Gene

NCBI:14211

Aliases

5730502P04Rik,
AI255214, AW545314, CAP-E,
CAPE, ENSMUSG00000028312, Fin16,
MGI:106067, NCBI:14211, OFF:Smc2,
SMC-2, Smc2, Smc2l1

Chr 4

ORFs

78 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.
556677	189	CTG ...	LLQ ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, v6-5
824312	54	CTG ...	LTK ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
544735	39	TTG ...	LKK ...	Ribo-seq	TTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, v6-5
1656127	36	CTG ...	LKK ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
556345	159	ATG ...	MRP ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, v6-5
513090	42	GTG ...	VGD ...	Ribo-seq	GTG	strong	3	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, Spleen_B_cell, v6-5
556925	57	ATG ...	MKV ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1557400	54	ATG ...	MLT ...	Ribo-seq	ATG		1	Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1377202	39	ATG ...	MCR ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	E14, Glioma, Liver, MEF, MESC
512830	141	TTG ...	LLP ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3
548427	39	ATG ...	MVL ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
547163	99	CTG ...	LKL ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
1226247	36	TTG ...	LGV ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	NSC
1733297	33	ATG ...	MEQ ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
548934	63	CTG ...	LFL ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF
549157	42	ATG ...	MSL ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
547763	120	GTG ...	VIM ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, v6-5
513768	33	ATG ...	MLL ...	Ribo-seq	ATG	moderate	5	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, BMDC, Glioma, Liver, MEF, MESC, NSC, Spleen_B_cell
513812	30	GTG ...	VHL ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Spleen_B_cell
510363	60	ATG ...	MHR ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
551540	51	CTG ...	LQR ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	sORF Upstream	3T3, MEF
547700	75	GTG ...	VQK ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
509438	153	GTG ...	VTC ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3
553736	57	CTG ...	LLA ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF
510536	66	GTG ...	VQK ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Spleen_B_cell
545257	138	TTG ...	LPN ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3
1658880	33	ATG ...	MML ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
553660	69	ATG ...	MKP ...	Ribo-seq	ATG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, Neutrophil, v6-5
509668	57	CTG ...	LES ...	Ribo-seq	CTG	strong	6	sORFs_org_Mouse	InCDS Overlapping sORF	E14, MEF, Spleen_B_cell, v6-5
548027	63	TTG ...	LII ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
1654245	30	ATG ...	MRK ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
549986	102	ATG ...	MLR ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, v6-5
1522	45	TTG ...	LHT ...	Ribo-seq	TTG		4	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, Skin_tumor
1733489	78	CTG ...	LFQ ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
511987	72	ATG ...	MLV ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC, Spleen_B_cell
824160	36	CTG ...	LKT ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
822049	105	ATG ...	MDR ...	Ribo-seq	ATG	strong	2	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
510679	96	ATG ...	MLN ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
549959	51	ATG ...	MQT ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF, v6-5
551538	48	GTG ...	VKK ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
548459	84	CTG ...	LHS ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
551888	102	ATG ...	MLK ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
554480	66	ATG ...	MLF ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
547378	105	CTG ...	LLQ ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, v6-5
547507	51	ATG ...	MKV ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, Neutrophil
550899	30	CTG ...	LSL ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF, v6-5
1508561	39	GTG ...	VPK ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	NSC
1082646	84	TTG ...	LAN ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
550584	99	CTG ...	LRN ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, v6-5
551536	138	ATG ...	MDC ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
557654	126	TTG ...	LGR ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, v6-5
825500	48	TTG ...	LAA ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	MEF
545953	57	TTG ...	LPI ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF
558513	60	GTG ...	VKK ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
558715	81	ATG ...	MKL ...	Ribo-seq	ATG		5	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC, v6-5
545932	69	GTG ...	VPM ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
546975	48	CTG ...	LKS ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
551393	84	ATG ...	MRW ...	Ribo-seq	ATG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, v6-5
511490	39	GTG ...	VAT ...	Ribo-seq	GTG	strong	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF, Spleen_B_cell
512149	33	TTG ...	LTP ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
512260	30	GTG ...	VMY ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	NSC, Spleen_B_cell
554506	84	TTG ...	LWY ...	Ribo-seq	TTG	weak	3	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF, v6-5
552753	30	ATG ...	MTN ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
1733801	45	TTG ...	LKK ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
554647	54	CTG ...	LAC ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF
822531	51	TTG ...	LLA ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative sORF Upstream	MEF
1733462	96	CTG ...	LGL ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
1377428	30	TTG ...	LCQ ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	E14, NSC
546803	129	ATG ...	MAF ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
552680	42	ATG ...	MRC ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse Johnstone2016	sORF Upstream	3T3, Glioma, Liver, MEF, MESC
552350	63	ATG ...	MIS ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
558570	75	ATG ...	MKP ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
549091	114	ATG ...	MIG ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC, v6-5
554243	42	TTG ...	LGR ...	Ribo-seq	TTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, v6-5
547894	75	ATG ...	MRP ...	Ribo-seq	ATG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, v6-5
558158	168	ATG ...	MRW ...	Ribo-seq	ATG		4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC, v6-5
554852	30	CTG ...	LSL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
511150	48	ATG ...	MPT ...	Ribo-seq	ATG	weak	1	Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC

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