Transcript 479516

Transcript

ID CARD

MetamORF ID

479516

ENSMUST00000004987

Name

Srpk1-201

Strand

Biotype

nonsense_mediated_decay

Start-end positions

28589591-28607169

CDS Start-stop positions

28599783-

CDS Relative positions

Sequences

Transcript sequence

GGA ...

Genome browsers

UCSC

Gene

NCBI:20815

Aliases

AU017960,
ENSMUSG00000004865, MGI:106908, NCBI:20815,
OFF:Srpk1, Srpk1

Chr 17

ORFs

25 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.
1191009	57	ACG ...	TAV ...	Ribo-seq	ACG	strong	1	sORFs_org_Mouse	NMD sORF	E14
387874	30	ATG ...	MLM ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	NMD sORF	MEF
706841	30	GTG ...	VLS ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	NMD sORF	3T3
480530	63	GTG ...	VIR ...	Ribo-seq	GTG		4	sORFs_org_Mouse	NMD sORF	3T3, B_cell, MEF, Spleen_B_cell
482534	60	CTG ...	LGK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	3T3
480628	69	TTG ...	LEL ...	Ribo-seq	TTG	strong	4	sORFs_org_Mouse	NMD sORF	3T3, B_cell, E14, Neutrophil
1190297	33	ATA ...	ISG ...	Ribo-seq	ATA		1	sORFs_org_Mouse	NMD sORF	E14
36074	174	GTG ...	VCQ ...	Ribo-seq	GTG		2	sORFs_org_Mouse	NMD sORF	B_cell, Neutrophil
796700	75	TTG ...	LFE ...	Ribo-seq	TTG		1	sORFs_org_Mouse	NMD sORF	B_cell
482003	48	CTG ...	LRR ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	NMD sORF	3T3
1193220	150	AAG ...	KHF ...	Ribo-seq	AAG		1	sORFs_org_Mouse	NMD sORF	E14
479515	51	TTG ...	LGW ...	Ribo-seq	TTG		4	sORFs_org_Mouse	NMD sORF	3T3, B_cell, MEF, Spleen_B_cell
703608	87	TTG ...	LRK ...	Ribo-seq	TTG		2	sORFs_org_Mouse	NMD sORF	3T3, MEF
1192334	63	GTG ...	VAA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	NMD sORF	E14
387415	45	CTG ...	LKI ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	NMD sORF	3T3, Spleen_B_cell
479292	78	CTG ...	LPM ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	NMD sORF	3T3, Neutrophil
1358639	48	CTG ...	LAT ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
703521	108	CTG ...	LLY ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	3T3
387485	57	GTG ...	VPD ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	NMD sORF	3T3
1190446	84	ATC ...	ILC ...	Ribo-seq	ATC	weak	1	sORFs_org_Mouse	NMD sORF	E14
481802	81	CTG ...	LLP ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	NMD sORF	3T3, E14, Neutrophil
1190439	51	AAG ...	KRA ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	NMD sORF	E14
707041	90	GTG ...	VPI ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	NMD sORF	3T3, B_cell, E14
37192	270	TTG ...	LKQ ...	Ribo-seq	TTG		4	sORFs_org_Mouse	NMD sORF	3T3, B_cell, E14, Neutrophil
36500	33	TTG ...	LSQ ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	NMD sORF	B_cell

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