Transcript 4540 | MetamORF

Transcript

ID CARD

MetamORF ID

4540

ENSMUST00000020258

Name

Herc4-201

Strand

Biotype

protein_coding

Start-end positions

63243911-63317874

CDS Start-stop positions

63245900-63317488

CDS Relative positions

Sequences

Transcript sequence

ATC ...

Genome browsers

UCSC

Gene

NCBI:67345

Aliases

1700056O17Rik,
4921531D01Rik, 9530080M15Rik, ENSMUSG00000020064,
Herc4, MGI:1914595, mKIAA1593,
NCBI:67345, OFF:Herc4

Chr 10

ORFs

55 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.
824263	45	CTG ...	LGQ ...	Ribo-seq	CTG	strong	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, MEF, v6-5
761880	66	CTG ...	LES ...	Ribo-seq	CTG	strong	3	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, MEF, Neutrophil
1590558	120	GTG ...	VSK ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
928675	57	AAG ...	KHV ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	BMDC
1177090	63	TTG ...	LLE ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
837287	48	GTG ...	VLG ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, MEF, v6-5
4539	48	ATG ...	MTI ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, Skin_tumor
512072	36	ATG ...	MGL ...	Ribo-seq	ATG	strong	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver, MEF, Spleen_B_cell
1282470	60	ATT ...	IPG ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
835106	192	CTG ...	LLT ...	Ribo-seq	CTG		2	sORFs_org_Mouse	sORF	B_cell, Neutrophil
822455	150	CTG ...	LTA ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, Neutrophil
1265533	33	ATT ...	IPG ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1587542	33	TTG ...	LDG ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1113868	84	CTG ...	LQQ ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, v6-5
1241276	66	ATG ...	MTI ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
826757	252	CTG ...	LAL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	sORF	B_cell
1672307	36	CTG ...	LWT ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1094104	177	TTG ...	LMP ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	v6-5
763313	123	GTG ...	VLA ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, Neutrophil
434826	69	GTG ...	VDS ...	Ribo-seq	GTG	strong	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver, MEF, Spleen_B_cell
512764	78	CTG ...	LED ...	Ribo-seq	CTG	strong	8	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, BMDC, E14, Liver, MEF, Spleen_B_cell, v6-5
1595238	99	GTG ...	VEI ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
429035	30	CTG ...	LCT ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Spleen_B_cell
1282111	93	ATC ...	ILN ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
427934	57	GTG ...	VDL ...	Ribo-seq	GTG	strong	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Spleen_B_cell
1669042	42	TTG ...	LGI ...	Ribo-seq	TTG		2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
429733	84	TTG ...	LKL ...	Ribo-seq	TTG	moderate	6	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, Liver, MEF, Spleen_B_cell, v6-5
7645	54	CTG ...	LLL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Skin_tumor
828544	210	TTG ...	LSL ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	sORF Upstream	B_cell
426887	48	TTG ...	LSW ...	Ribo-seq	TTG	weak	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver, MEF, Spleen_B_cell
837983	204	GTG ...	VVS ...	Ribo-seq	GTG		1	sORFs_org_Mouse	sORF	B_cell
1282808	144	AAG ...	KNF ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Overlapping sORF Upstream	E14
429513	39	ATG ...	MMG ...	Ribo-seq	ATG	weak	5	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, Spleen_B_cell
1103567	180	TTG ...	LLM ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	v6-5
1082357	57	TTG ...	LNS ...	Ribo-seq	TTG		2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, v6-5
1314139	33	TTG ...	LSK ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
829515	120	CTG ...	LAA ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, Neutrophil
1595338	135	CTG ...	LKT ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
598569	60	TTG ...	LMP ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1121288	81	CTG ...	LQQ ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, v6-5
517710	33	CTG ...	LRS ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, Neutrophil, Spleen_B_cell
844618	72	CTG ...	LKE ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	sORF Upstream	B_cell
1244355	75	ATG ...	MKS ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
603523	66	TTG ...	LYL ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1105233	39	TTG ...	LLL ...	Ribo-seq	TTG		2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, v6-5
7142	51	CTG ...	LLI ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Skin_tumor
583442	39	ATG ...	MKI ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1652434	45	ATG ...	MTL ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
822861	162	CTG ...	LGK ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	sORF Upstream	B_cell
1281866	66	ATC ...	ILN ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
429356	54	CTG ...	LCL ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver, MEF, Spleen_B_cell
1119525	72	ATG ...	MEV ...	Ribo-seq	ATG		4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, v6-5
418067	81	AGG ...	RDF ...	Ribo-seq	AGG	strong	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	C2C12, E14
619488	60	TTG ...	LEK ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, v6-5
1275917	129	ATA ...	IGY ...	Ribo-seq	ATA	strong	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	E14

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