Transcript 9856 | MetamORF

Transcript

ID CARD

MetamORF ID

9856

ENSMUST00000072299

Name

Vsnl1-201

Strand

Biotype

protein_coding

Start-end positions

11325242-11436613

CDS Start-stop positions

11326307-11386976

CDS Relative positions

Sequences

Transcript sequence

AGC ...

Genome browsers

UCSC

Gene

NCBI:26950

Aliases

ENSMUSG00000054459,
MGI:1349453, NCBI:26950, OFF:Vsnl1,
VILIP, Vnsl1, Vsnl1

Chr 12

ORFs

15 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.
323467	114	GTG ...	VLQ ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	Brain
997214	90	GTG ...	VVQ ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
331271	84	ATG ...	MIW ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
322689	63	ATG ...	MSM ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
327467	39	TTG ...	LKE ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	sORF Upstream	Brain
323175	72	CTG ...	LSS ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
997862	87	ATG ...	MGF ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	sORF Upstream	Brain, Glioma, Liver, MEF, MESC
997473	57	ATG ...	MSL ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
325771	111	TTG ...	LQR ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	Brain
9855	66	CTG ...	LSE ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Skin_tumor
997737	174	CTG ...	LNS ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	Brain
326559	30	CTG ...	LLS ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	sORF Upstream	Brain
997402	69	GTG ...	VTV ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative sORF Upstream	Brain
997966	72	GTG ...	VTA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1532848	30	CTG ...	LCP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain

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