Transcript 6968 | MetamORF

Transcript

ID CARD

MetamORF ID

6968

ENSMUST00000042824

Name

Herc1-201

Strand

Biotype

protein_coding

Start-end positions

66350526-66508775

CDS Start-stop positions

66371812-66508324

CDS Relative positions

Sequences

Transcript sequence

AAA ...

Genome browsers

UCSC

Gene

NCBI:235439

Aliases

2810449H11Rik,
B230218H07, D130015N03Rik, ENSMUSG00000038664,
Herc1, MGI:2384589, NCBI:235439,
OFF:Herc1, tbl

Chr 9

ORFs

31 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.
924103	33	AAG ...	KNE ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
1750438	39	TTG ...	LIT ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
1571028	60	CTG ...	LQL ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1586225	30	CTG ...	LCY ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1571795	45	ATG ...	MSR ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1572235	75	ATG ...	MLL ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
1111747	66	CTG ...	LVR ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
268044	93	ATG ...	MDR ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1111365	54	TTG ...	LSR ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
1585971	39	ATG ...	MYC ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1113217	78	ATG ...	MFR ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, v6-5
265991	30	ATG ...	MNT ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1110154	69	TTG ...	LGL ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
1587356	63	ATG ...	MSS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1113541	66	TTG ...	LDD ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
1584660	33	TTG ...	LLV ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
763838	66	GTG ...	VLE ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative sORF Upstream	B_cell
761567	42	CTG ...	LKS ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, E14
1584887	66	TTG ...	LMS ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
1112572	45	TTG ...	LWF ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	NSC, v6-5
1571162	60	ATG ...	MLL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
6967	51	CTG ...	LID ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Skin_tumor
621263	63	CTG ...	LVQ ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1583828	69	CTG ...	LFG ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1585626	36	CTG ...	LID ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1750804	36	TTG ...	LRL ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1113419	69	TTG ...	LWK ...	Ribo-seq	TTG	weak	2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, v6-5
1588039	54	GTG ...	VEL ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
1572842	69	CTG ...	LQK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
626632	63	CTG ...	LEP ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell
1585708	48	TTG ...	LEL ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF

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