Transcript 94748 | MetamORF

Transcript

ID CARD

MetamORF ID

94748

ENST00000469543

Name

VIM-203

Strand

Biotype

nonsense_mediated_decay

Start-end positions

17230004-17237593

CDS Start-stop positions

17230633-17235393

CDS Relative positions

Sequences

Transcript sequence

AAG ...

Genome browsers

UCSC

Gene

HGNC:12692

Aliases

ENSG00000026025,
HGNC:12692, NCBI:7431, OFF:VIM,
VIM

Chr 10

ORFs

60 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.
893906	201	CGT ...	REM ...	Ribo-seq	CGT	strong	4	sORFs_org_Human	CDS NMD sORF	HEK293, HeLa, Jurkat, THP-1
94776	60	CTG ...	LPL ...	Ribo-seq	CTG	weak	29	sORFs_org_Human	Downstream NMD sORF	BJ, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, Monocyte, RPE-1, THP-1, U2OS
893908	69	ACT ...	TLP ...	Ribo-seq	ACT	moderate	2	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HEK293, Jurkat
94770	84	TTG ...	LTL ...	Ribo-seq	TTG	weak	25	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, Blood, guo_2014, HAP1, HEK293, HeLa, hES, HFF, LCL, MM1S, Monocyte, RPE-1, THP-1, U2OS
1301371	129	ATT ...	IQN ...	Ribo-seq	ATT	moderate	1	sORFs_org_Human	CDS NMD sORF	BJ
1045942	66	GTG ...	VPF ...	Ribo-seq	GTG	weak	2	sORFs_org_Human	Alternative Downstream NMD sORF	guo_2014, HeLa
2615519	33	AGG ...	RKL ...	Ribo-seq	AGG	weak	3	sORFs_org_Human	CDS NMD sORF	HEK293, HeLa, THP-1
893912	162	TAC ...	YQD ...	Ribo-seq	TAC	moderate	1	sORFs_org_Human	CDS NMD sORF	Jurkat
94778	93	CTG ...	LDS ...	Ribo-seq	CTG		36	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, Skeletal_muscle, THP-1, U2OS
1301378	75	CTC ...	LNV ...	Ribo-seq	CTC	weak	1	sORFs_org_Human	CDS NMD sORF	BJ
96425	132	GTG ...	VWP ...	Ribo-seq	GTG		9	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	BJ, guo_2014, HEK293, HEK293T, HeLa, hES, Monocyte
893938	39	ACG ...	TVE ...	Ribo-seq	ACG		5	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, HEK293, HeLa, Jurkat, THP-1
1045936	129	ATG ...	MTL ...	Ribo-seq	ATG	moderate	4	sORFs_org_Human	Alternative Downstream NMD sORF	guo_2014, HeLa, HFF, RPE-1
893920	129	GTC ...	VTF ...	Ribo-seq	GTC	weak	5	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, HEK293, HeLa, Jurkat, THP-1
94766	78	CTG ...	LLN ...	Ribo-seq	CTG	moderate	33	sORFs_org_Human	CDS NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
1045938	42	TTG ...	LHT ...	Ribo-seq	TTG	moderate	2	sORFs_org_Human	Downstream NMD sORF	guo_2014, RPE-1
1309665	45	ATT ...	IHS ...	Ribo-seq	ATT	weak	3	sORFs_org_Human	Downstream NMD sORF	HEK293, HeLa, THP-1
96484	45	CTG ...	LFI ...	Ribo-seq	CTG	weak	16	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, HEK293, HeLa, hES, HFF, LCL, Monocyte, RPE-1, THP-1
94764	120	GTG ...	VNT ...	Ribo-seq	GTG	weak	31	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
2615524	150	ACG ...	TKL ...	Ribo-seq	ACG	weak	2	sORFs_org_Human	Alternative Downstream NMD sORF	HeLa, THP-1
1045940	99	GTG ...	VQQ ...	Ribo-seq	GTG	weak	2	sORFs_org_Human	Alternative Downstream NMD sORF	guo_2014, RPE-1
94768	99	ATG ...	MLR ...	Ribo-seq	ATG	weak	29	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, Blood, Brain, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MM1S, Monocyte, RPE-1, THP-1, U2OS
893928	96	TTA ...	LRW ...	Ribo-seq	TTA	moderate	4	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	HEK293, HeLa, Jurkat, THP-1
94780	78	CTG ...	LVD ...	Ribo-seq	CTG		36	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, Skeletal_muscle, THP-1, U2OS
1301381	69	ACC ...	THS ...	Ribo-seq	ACC		1	sORFs_org_Human	Alternative Downstream NMD sORF	BJ
94750	216	CTG ...	LER ...	Ribo-seq	CTG	moderate	34	sORFs_org_Human	CDS NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
1437800	36	CTG ...	LNL ...	Ribo-seq	CTG	weak	6	sORFs_org_Human	Downstream NMD sORF	HeLa, HFF, MDA-MB-231, Monocyte, RPE-1
94784	48	CTG ...	LIK ...	Ribo-seq	CTG		36	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, Skeletal_muscle, THP-1, U2OS
94747	108	ATG ...	MSP ...	Ribo-seq	ATG	weak	38	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
2632248	39	ATG ...	MDR ...	Ribo-seq	ATG		1	sORFs_org_Human	Downstream NMD sORF	Monocyte
94758	54	CTG ...	LLT ...	Ribo-seq	CTG	moderate	33	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
893904	213	GAA ...	ERQ ...	Ribo-seq	GAA	weak	4	sORFs_org_Human	CDS NMD sORF	HEK293, HeLa, Jurkat, THP-1
94782	30	TTG ...	LIP ...	Ribo-seq	TTG	weak	33	sORFs_org_Human	Downstream NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
94760	33	TTG ...	LAA ...	Ribo-seq	TTG	moderate	33	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
94754	66	TTG ...	LPL ...	Ribo-seq	TTG	moderate	33	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
1301369	177	GTT ...	VEA ...	Ribo-seq	GTT	strong	1	sORFs_org_Human	CDS NMD sORF	BJ
893936	42	CAC ...	HSL ...	Ribo-seq	CAC	moderate	2	sORFs_org_Human	Downstream NMD sORF	HEK293, Jurkat
893918	33	TAT ...	YEG ...	Ribo-seq	TAT	strong	2	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HEK293, Jurkat
1301367	207	CAG ...	QMR ...	Ribo-seq	CAG	weak	2	sORFs_org_Human	CDS NMD sORF	BJ, HEK293
94756	60	TTG ...	LKL ...	Ribo-seq	TTG	weak	33	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
94774	72	TTG ...	LPP ...	Ribo-seq	TTG	moderate	18	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, HAP1, HEK293, HeLa, hES, HFF, LCL, MM1S, Monocyte, U2OS
893914	36	CTA ...	LLA ...	Ribo-seq	CTA	moderate	4	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HEK293, HeLa, Jurkat, THP-1
94752	84	GTG ...	VKW ...	Ribo-seq	GTG	weak	34	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
893930	90	TGG ...	WPL ...	Ribo-seq	TGG	moderate	5	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, HEK293, HeLa, Jurkat, THP-1
94762	141	CTG ...	LQD ...	Ribo-seq	CTG	weak	33	sORFs_org_Human	CDS NMD sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, Monocyte, RPE-1, THP-1, U2OS
893934	51	CCA ...	PNF ...	Ribo-seq	CCA	weak	3	sORFs_org_Human	Downstream NMD sORF	HeLa, Jurkat, THP-1
893932	42	GCC ...	ATY ...	Ribo-seq	GCC	moderate	2	sORFs_org_Human	CDS NMD sORF	HEK293, Jurkat
2419252	123	TTG ...	LNK ...	Ribo-seq	TTG	moderate	2	sORFs_org_Human	Alternative Downstream NMD sORF	HFF, RPE-1
893940	39	ATC ...	INE ...	Ribo-seq	ATC	moderate	2	sORFs_org_Human	Downstream NMD sORF	HEK293, Jurkat
94772	78	TTG ...	LRL ...	Ribo-seq	TTG	moderate	24	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, Blood, guo_2014, HAP1, HEK293, HeLa, hES, HFF, LCL, MM1S, Monocyte, RPE-1, THP-1, U2OS
1045934	195	GTG ...	VAL ...	Ribo-seq	GTG		3	sORFs_org_Human	Alternative Downstream NMD sORF	guo_2014, HeLa, RPE-1
2615508	144	CGC ...	RLQ ...	Ribo-seq	CGC	moderate	2	sORFs_org_Human	CDS NMD sORF	HeLa, THP-1
2615510	138	CAG ...	QDE ...	Ribo-seq	CAG	moderate	3	sORFs_org_Human	CDS NMD sORF	HEK293, HeLa, THP-1
893922	123	TTC ...	FVN ...	Ribo-seq	TTC	strong	5	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, HEK293, HeLa, Jurkat, THP-1
893916	39	TCA ...	SEY ...	Ribo-seq	TCA	strong	3	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HeLa, Jurkat, THP-1
1301376	111	AAG ...	KTC ...	Ribo-seq	AAG	moderate	2	sORFs_org_Human	Alternative Downstream NMD Overlapping sORF	BJ, HEK293
2615512	132	GAG ...	EIQ ...	Ribo-seq	GAG	moderate	2	sORFs_org_Human	CDS NMD sORF	HeLa, THP-1
893910	57	AAG ...	KLL ...	Ribo-seq	AAG	weak	4	sORFs_org_Human	Alternative InCDS NMD Overlapping sORF	HEK293, HeLa, Jurkat, THP-1
1045932	51	TTG ...	LKL ...	Ribo-seq	TTG		10	sORFs_org_Human	Downstream NMD sORF	BJ, guo_2014, HEK293, HEK293T, HeLa, HFF, Monocyte
1437802	30	CTG ...	LRG ...	Ribo-seq	CTG	moderate	2	sORFs_org_Human	Downstream NMD sORF	HeLa, RPE-1

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