Transcript 5904 | MetamORF

Transcript

ID CARD

MetamORF ID

5904

ENSMUST00000034713

Name

Ldlr-201

Strand

Biotype

protein_coding

Start-end positions

21723483-21749919

CDS Start-stop positions

21723778-21748176

CDS Relative positions

Sequences

Transcript sequence

GGA ...

Genome browsers

UCSC

Gene

NCBI:16835

Aliases

ENSMUSG00000032193,
Hlb301, Ldlr, MGI:96765,
NCBI:16835, OFF:Ldlr

Chr 9

ORFs

62 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.
623447	36	TTG ...	LGP ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
625987	102	ATG ...	MGA ...	Ribo-seq	ATG		5	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
433822	183	CTG ...	LET ...	Ribo-seq	CTG	moderate	8	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, Liver, MEF, Neutrophil, R1E, Spleen_B_cell
6099	42	CTG ...	LQG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	Skin_tumor
6117	60	GTG ...	VFG ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	Skin_tumor
434039	150	CTG ...	LGV ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, E14
626790	60	ATG ...	MAS ...	Ribo-seq	ATG		6	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	BMDC, E14, Glioma, Liver, MEF, MESC, Neutrophil, v6-5
623479	51	TTG ...	LPS ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
435857	42	ATG ...	MPG ...	Ribo-seq	ATG	weak	1	Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1478735	180	GTG ...	VRQ ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
619324	111	TTG ...	LGN ...	Ribo-seq	TTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, MEF, Neutrophil
267393	156	ATG ...	MTL ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse Johnstone2016	Alternative sORF Upstream	B_cell, BMDC, E14, Glioma, Liver, MEF, MESC
925321	51	AGG ...	RAQ ...	Ribo-seq	AGG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
435548	87	CTG ...	LSP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
1479748	156	ATG ...	MVV ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
764290	162	TTG ...	LTT ...	Ribo-seq	TTG		4	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	B_cell, BMDC, MEF
764238	78	CTG ...	LGH ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, E14, MEF, NSC, v6-5
439510	141	CTG ...	LDR ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, MEF, Neutrophil, v6-5
438114	48	GTG ...	VSA ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
255229	84	TTG ...	LTT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
625351	141	TTG ...	LIP ...	Ribo-seq	TTG		5	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
922079	39	ATT ...	IGE ...	Ribo-seq	ATT	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
626853	159	GTG ...	VAV ...	Ribo-seq	GTG		4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
923380	42	AAG ...	KPF ...	Ribo-seq	AAG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
6584	36	CTG ...	LAA ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
434046	162	CTG ...	LGM ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, Neutrophil
6902	51	CTG ...	LQG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	Skin_tumor
435310	75	GTG ...	VRI ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	3T3
624675	78	ATG ...	MGA ...	Ribo-seq	ATG		4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF
1272180	123	ATT ...	IGL ...	Ribo-seq	ATT		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
922343	153	GTG ...	VVA ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
621881	120	CTG ...	LDR ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, MEF, Neutrophil
621255	48	ATG ...	MRT ...	Ribo-seq	ATG		1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
5903	30	GTG ...	VTV ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Skin_tumor
925303	93	ATC ...	IGK ...	Ribo-seq	ATC		2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
627451	54	GTG ...	VAK ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
437344	72	ATG ...	MTS ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
990123	57	CTG ...	LVR ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
438426	144	GTG ...	VRR ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, E14, Neutrophil
434036	54	ATG ...	MAS ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
260110	75	TTG ...	LDR ...	Ribo-seq	TTG	strong	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, NSC
625064	186	GTG ...	VPG ...	Ribo-seq	GTG		4	sORFs_org_Mouse	InCDS Overlapping sORF	B_cell, E14, MEF, v6-5
622917	84	ATG ...	MSM ...	Ribo-seq	ATG		3	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF
438584	78	ATG ...	MNS ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
924036	69	ATC ...	IGK ...	Ribo-seq	ATC		1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
6153	39	GTG ...	VRL ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	Skin_tumor
627812	72	ATG ...	MRT ...	Ribo-seq	ATG		2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, MEF
619805	42	TTG ...	LSL ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
626922	108	ATG ...	MSM ...	Ribo-seq	ATG		5	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	BMDC, E14, Glioma, Liver, MEF, MESC, v6-5
436345	81	CTG ...	LMN ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
1274906	147	ATT ...	IGL ...	Ribo-seq	ATT		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
6106	45	GTG ...	VEE ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
255718	48	ATG ...	MHP ...	Ribo-seq	ATG	weak	1	Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
626427	66	CTG ...	LCM ...	Ribo-seq	CTG		4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, MEF, Neutrophil, v6-5
435808	57	GTG ...	VEA ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
623997	117	TTG ...	LIP ...	Ribo-seq	TTG		5	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
621586	36	GTG ...	VRT ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
623135	135	GTG ...	VAV ...	Ribo-seq	GTG		4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, MEF, v6-5
436831	30	GTG ...	VPI ...	Ribo-seq	GTG	weak	4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14, Neutrophil
437794	30	CTG ...	LTP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
627457	132	TTG ...	LGN ...	Ribo-seq	TTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, Neutrophil, v6-5
437284	30	TTG ...	LCV ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC

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