Transcript 41458 | MetamORF

Transcript

ID CARD

MetamORF ID

41458

ENSMUST00000160852

Name

Sssca1-205

Strand

Biotype

nonsense_mediated_decay

Start-end positions

5728088-5731713

CDS Start-stop positions

5730369-5731694

CDS Relative positions

Sequences

Transcript sequence

CAG ...

Genome browsers

UCSC

Gene

NCBI:56390

Aliases

1500016H19Rik,
C184L, ENSMUSG00000079478, MGI:1913482,
NCBI:56390, OFF:Znrd2, Sssca1,
Znrd2

Chr 19

ORFs

50 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.
1007975	159	CTG ...	LHS ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
1007834	123	CTG ...	LSD ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
1457494	90	CTG ...	LPP ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	BMDC
720147	126	CTG ...	LMT ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
42433	153	GTG ...	VAS ...	Ribo-seq	GTG	strong	4	sORFs_org_Mouse	CDS NMD sORF	3T3, R1E, Spleen_B_cell, Testis
405060	84	ATG ...	MVL ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
723545	105	ATG ...	MPA ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
401391	33	CTG ...	LPG ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Downstream NMD sORF	Spleen_B_cell
719618	102	GTG ...	VPP ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
42518	108	GTG ...	VGP ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
721696	45	CTG ...	LQR ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
1457798	111	CTG ...	LSV ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
404445	60	CTG ...	LLT ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
490216	93	ATG ...	MST ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3, R1E, Spleen_B_cell
41457	129	CTG ...	LQK ...	Ribo-seq	CTG	weak	4	sORFs_org_Mouse	CDS NMD sORF	3T3, R1E, Spleen_B_cell, Testis
1007229	183	TTG ...	LCQ ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
404291	300	CTG ...	LAS ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	CDS NMD sORF	Brain, Spleen_B_cell
1457964	159	TTG ...	LSV ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
490699	51	GTG ...	VPV ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
41940	243	GTG ...	VLQ ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E, Testis
720817	138	ATG ...	MPA ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
1007215	171	CTG ...	LSS ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
401402	72	ATG ...	MPL ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
41660	39	CTG ...	LCG ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, Spleen_B_cell, Testis
1007800	201	CTG ...	LCQ ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
1007171	189	CTG ...	LSL ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
490310	63	CTG ...	LKL ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3, R1E, Spleen_B_cell
1868444	240	CTG ...	LQA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E
41905	81	TTG ...	LET ...	Ribo-seq	TTG	moderate	4	sORFs_org_Mouse	CDS NMD sORF	3T3, R1E, Spleen_B_cell, Testis
42837	75	CTG ...	LWA ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative Downstream NMD Overlapping sORF	R1E, Testis
490719	33	GTG ...	VGL ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, Spleen_B_cell
1457389	117	GTG ...	VPA ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
489102	45	GTG ...	VVT ...	Ribo-seq	GTG		3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Brain, R1E, Spleen_B_cell
42218	30	TTG ...	LSG ...	Ribo-seq	TTG	moderate	4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, R1E, Spleen_B_cell, Testis
1007354	240	CTG ...	LWG ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
42384	138	CTG ...	LQD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Testis
404075	66	CTG ...	LDL ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
721896	108	CTG ...	LMP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
721674	66	GTG ...	VGA ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
724236	123	ATG ...	MTR ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
1007498	231	CTG ...	LYE ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain, Liver
489959	57	CTG ...	LRR ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3, R1E, Spleen_B_cell
43069	99	CTG ...	LGS ...	Ribo-seq	CTG	strong	4	sORFs_org_Mouse	CDS NMD sORF	3T3, R1E, Spleen_B_cell, Testis
723240	72	GTG ...	VAE ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Downstream NMD sORF	3T3
42024	60	CTG ...	LHL ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell, Testis
41548	108	GTG ...	VAC ...	Ribo-seq	GTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Testis
41972	111	GTG ...	VKA ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, Spleen_B_cell, Testis
718495	165	CTG ...	LPR ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, R1E
721432	141	CTG ...	LMP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
724604	60	CTG ...	LRS ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Downstream NMD sORF	3T3, B_cell

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