Transcript 479 | MetamORF

Transcript

ID CARD

MetamORF ID

479

ENSMUST00000029385

Name

Serp1-201

Strand

Biotype

protein_coding

Start-end positions

58519817-58525892

CDS Start-stop positions

58523828-58525493

CDS Relative positions

Sequences

Transcript sequence

GCT ...

Genome browsers

UCSC

Gene

NCBI:28146

Aliases

D3Ucla1,
ENSMUSG00000027808, MGI:92638, NCBI:28146,
OFF:Serp1, Ramp4, Serp1

Chr 3

ORFs

32 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.
819735	30	ATG ...	MFD ...	Ribo-seq	ATG	weak	4	sORFs_org_Mouse Johnstone2016	Alternative Downstream sORF	B_cell, E14, Glioma, Liver, MEF, MESC, v6-5
55026	189	GTG ...	VQA ...	Ribo-seq	GTG		4	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, R1E, Testis
54277	117	GTG ...	VAR ...	Ribo-seq	GTG	moderate	16	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
51988	78	TTG ...	LGQ ...	Ribo-seq	TTG	moderate	19	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
54204	189	GTG ...	VAV ...	Ribo-seq	GTG	moderate	19	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
894798	84	ACG ...	TPP ...	Ribo-seq	ACG	moderate	2	sORFs_org_Mouse	Alternative sORF Upstream	BMDC, E14
54082	195	GTG ...	VFQ ...	Ribo-seq	GTG	weak	14	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis
53717	294	CTG ...	LSG ...	Ribo-seq	CTG	moderate	14	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, E14, Liver, MEF, Neutrophil, Spleen_B_cell, Testis
53469	69	CTG ...	LLR ...	Ribo-seq	CTG	moderate	13	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, BMDC, Brain, Liver, MEF, Neutrophil, Spleen_B_cell, Testis
52019	126	TTG ...	LDS ...	Ribo-seq	TTG	moderate	9	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, BMDC, Brain, Liver, MEF, Neutrophil, Spleen_B_cell, Testis
817797	45	TTG ...	LQK ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative Downstream sORF	B_cell, E14
892837	39	AAG ...	KHH ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative Downstream sORF	BMDC
54074	297	TTG ...	LPL ...	Ribo-seq	TTG	weak	14	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
53899	69	GTG ...	VAL ...	Ribo-seq	GTG	moderate	17	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
893202	33	ATG ...	MSF ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream sORF	BMDC, Glioma, Liver, MEF, MESC
143922	87	CTG ...	LQF ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	B_cell, BMDC, Brain, MEF, R1E, Spleen_B_cell, v6-5
1220661	231	ATC ...	IGG ...	Ribo-seq	ATC	strong	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	E14
817203	30	ATG ...	MNK ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	B_cell, E14
478	123	TTG ...	LQR ...	Ribo-seq	TTG		10	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, Brain, Liver, R1E, Skin_tumor, Spleen_B_cell, Testis
1223126	162	ATC ...	IRA ...	Ribo-seq	ATC	moderate	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	E14
1683465	33	CTG ...	LIR ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream sORF	MEF
1222438	129	ATG ...	MTF ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream sORF	E14, Glioma, Liver, MEF, MESC
515	144	TTG ...	LKP ...	Ribo-seq	TTG		10	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, Brain, Liver, R1E, Skin_tumor, Spleen_B_cell, Testis
137524	45	CTG ...	LVI ...	Ribo-seq	CTG		13	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, BMDC, Brain, Liver, MEF, Spleen_B_cell, v6-5
52486	201	CTG ...	LPV ...	Ribo-seq	CTG	weak	12	sORFs_org_Mouse	Overlapping sORF Upstream	B_cell, BMDC, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis
54451	105	CTG ...	LRP ...	Ribo-seq	CTG	moderate	12	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, Spleen_B_cell, Testis
54910	180	TTG ...	LGA ...	Ribo-seq	TTG		6	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, Brain, R1E, Spleen_B_cell, Testis
52281	63	CTG ...	LRK ...	Ribo-seq	CTG	moderate	16	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, BMDC, Brain, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
483	150	CTG ...	LHL ...	Ribo-seq	CTG		10	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, Brain, Liver, R1E, Skin_tumor, Spleen_B_cell, Testis
55193	159	GTG ...	VLS ...	Ribo-seq	GTG		8	sORFs_org_Mouse	CDS sORF	B_cell, BMDC, Brain, R1E, Spleen_B_cell, Testis
894960	93	ATA ...	ISA ...	Ribo-seq	ATA	weak	1	sORFs_org_Mouse	Alternative Downstream sORF	BMDC
818153	33	CTG ...	LMF ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	B_cell, v6-5

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