Transcript 20961 | MetamORF

Transcript

ID CARD

MetamORF ID

20961

ENSMUST00000174174

Name

Shmt1-209

Strand

Biotype

nonsense_mediated_decay

Start-end positions

60789144-60807021

CDS Start-stop positions

60801444-

CDS Relative positions

Sequences

Transcript sequence

GGC ...

Genome browsers

UCSC

Gene

NCBI:20425

Aliases

AI324848,
AI385541, C81125, ENSMUSG00000020534,
MGI:98299, mshmt, mshmt1,
mshmt2, NCBI:20425, OFF:Shmt1,
Shmt, Shmt1

Chr 11

ORFs

27 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.
448993	78	CTG ...	LPC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	Spleen_B_cell
448137	132	GTG ...	VWI ...	Ribo-seq	GTG		1	sORFs_org_Mouse	NMD sORF	R1E
449163	93	CTG ...	LEM ...	Ribo-seq	CTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
21645	54	CTG ...	LGS ...	Ribo-seq	CTG		4	sORFs_org_Mouse	NMD sORF	Neutrophil, R1E, Spleen_B_cell, Testis
91335	66	GTG ...	VLE ...	Ribo-seq	GTG		4	sORFs_org_Mouse	NMD sORF	Neutrophil, R1E, Spleen_B_cell, Testis
21634	189	CTG ...	LVE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
1341675	159	TTG ...	LDL ...	Ribo-seq	TTG		1	sORFs_org_Mouse	NMD sORF	R1E
771752	57	CTG ...	LIR ...	Ribo-seq	CTG		2	sORFs_org_Mouse	NMD sORF	Liver, R1E
91543	63	TTG ...	LEA ...	Ribo-seq	TTG		4	sORFs_org_Mouse	NMD sORF	Neutrophil, R1E, Spleen_B_cell, Testis
774071	90	CTG ...	LWA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
890631	42	CTG ...	LPH ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
447940	69	ATG ...	MPP ...	Ribo-seq	ATG		3	sORFs_org_Mouse	NMD sORF	Liver, R1E, Spleen_B_cell
453424	78	GTG ...	VSE ...	Ribo-seq	GTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
91062	201	GTG ...	VYT ...	Ribo-seq	GTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
991901	93	TTG ...	LHR ...	Ribo-seq	TTG		1	sORFs_org_Mouse	NMD sORF	Liver
1843539	84	GTG ...	VHY ...	Ribo-seq	GTG		1	sORFs_org_Mouse	NMD sORF	R1E
448459	84	CTG ...	LCQ ...	Ribo-seq	CTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
20960	99	CTG ...	LIA ...	Ribo-seq	CTG		4	sORFs_org_Mouse	NMD sORF	Neutrophil, R1E, Spleen_B_cell, Testis
452429	117	CTG ...	LAK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
450303	51	CTG ...	LDP ...	Ribo-seq	CTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
450695	48	ATG ...	MRR ...	Ribo-seq	ATG		4	sORFs_org_Mouse	NMD sORF	Liver, Neutrophil, R1E, Spleen_B_cell
890075	111	ATG ...	MSW ...	Ribo-seq	ATG		1	sORFs_org_Mouse	NMD sORF	R1E
1292100	99	ATG ...	MNW ...	Ribo-seq	ATG		1	sORFs_org_Mouse	NMD sORF	R1E
1842846	159	CTG ...	LSQ ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
1337786	153	CTG ...	LPD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	NMD sORF	R1E
445993	36	CTG ...	LPC ...	Ribo-seq	CTG		2	sORFs_org_Mouse	NMD sORF	R1E, Spleen_B_cell
446274	141	GTG ...	VCA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	NMD sORF	R1E

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