Transcript 11630 | MetamORF

Transcript

ID CARD

MetamORF ID

11630

ENST00000556737

Name

SHMT2-224

Strand

Biotype

protein_coding

Start-end positions

57230703-57231906

CDS Start-stop positions

57230833-

CDS Relative positions

Sequences

Transcript sequence

AAC ...

Genome browsers

UCSC

Gene

HGNC:10852

Aliases

ENSG00000182199,
HGNC:10852, NCBI:6472, OFF:SHMT2,
SHMT, SHMT2

Chr 12

ORFs

23 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.
11638	33	CTG ...	LDR ...	Ribo-seq	CTG	strong	15	sORFs_org_Human	sORF	Blood, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, THP-1
301213	192	CTG ...	LGK ...	Ribo-seq	CTG		14	sORFs_org_Human	sORF	HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MM1S, RPE-1, U2OS
923092	261	TGC ...	CRD ...	Ribo-seq	TGC		1	sORFs_org_Human	sORF	Jurkat
451868	57	TTG ...	LPQ ...	Ribo-seq	TTG		13	sORFs_org_Human	sORF	BJ, Blood, HEK293, HEK293T, HeLa, hES, MDA-MB-231, RPE-1, THP-1, U2OS
308332	264	CTG ...	LTF ...	Ribo-seq	CTG		14	sORFs_org_Human	sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, LCL, MDA-MB-231, RPE-1, U2OS
11634	114	ATG ...	MWA ...	Ribo-seq	ATG	moderate	25	sORFs_org_Human	sORF	BJ, Blood, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
308334	231	GTG ...	VGS ...	Ribo-seq	GTG		24	sORFs_org_Human	sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HCT116, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, RPE-1, THP-1, U2OS
112226	72	GTG ...	VAW ...	Ribo-seq	GTG		13	sORFs_org_Human	sORF	BJ, Blood, HEK293, HeLa, hES, LCL, MDA-MB-231, RPE-1, THP-1, U2OS
413116	168	GGG ...	GKQ ...	Ribo-seq	GGG		1	sORFs_org_Human	sORF	HCT116
301216	144	GTG ...	VIL ...	Ribo-seq	GTG		2	sORFs_org_Human	sORF	HEK293, LCL
308339	123	GTG ...	VIL ...	Ribo-seq	GTG		14	sORFs_org_Human	sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, LCL, MDA-MB-231, RPE-1, U2OS
413114	186	CAG ...	QPR ...	Ribo-seq	CAG		1	sORFs_org_Human	sORF	HCT116
11636	252	GTG ...	VGS ...	Ribo-seq	GTG		29	sORFs_org_Human	sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HCT116, HEK293, HEK293T, HeLa, hES, HFF, Jurkat, LCL, MM1S, RPE-1, THP-1, U2OS
923097	93	GGC ...	GHS ...	Ribo-seq	GGC	moderate	3	sORFs_org_Human	sORF	HeLa, Jurkat, THP-1
308336	171	CTG ...	LGK ...	Ribo-seq	CTG		14	sORFs_org_Human	sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, LCL, MDA-MB-231, RPE-1, U2OS
301220	117	GTG ...	VGV ...	Ribo-seq	GTG		4	sORFs_org_Human	sORF	HEK293, HeLa, hES, LCL
923095	237	GGA ...	GWP ...	Ribo-seq	GGA		1	sORFs_org_Human	sORF	Jurkat
308341	117	CTG ...	LRC ...	Ribo-seq	CTG		14	sORFs_org_Human	sORF	BJ, Blood, HAP1, HEK293, HEK293T, HeLa, hES, LCL, MDA-MB-231, RPE-1, U2OS
411417	189	GGG ...	GKQ ...	Ribo-seq	GGG		1	sORFs_org_Human	sORF	HCT116
301218	138	CTG ...	LRC ...	Ribo-seq	CTG		1	sORFs_org_Human	sORF	LCL
11629	285	CTG ...	LTF ...	Ribo-seq	CTG		22	sORFs_org_Human	sORF	Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MM1S, RPE-1, U2OS
11632	135	CTG ...	LPS ...	Ribo-seq	CTG	weak	17	sORFs_org_Human	sORF	BJ, Blood, guo_2014, HEK293, HEK293T, HeLa, hES, HFF, LCL, MM1S, THP-1
411415	207	CAG ...	QPR ...	Ribo-seq	CAG		1	sORFs_org_Human	sORF	HCT116

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