Transcript 11641 | MetamORF

Transcript

ID CARD

MetamORF ID

11641

ENST00000555213

Name

SHMT2-218

Strand

Biotype

retained_intron

Start-end positions

57231448-57232487

CDS Start-stop positions

CDS Relative positions

Sequences

Transcript sequence

AAT ...

Genome browsers

UCSC

Gene

HGNC:10852

Aliases

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

Chr 12

ORFs

29 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.
411419	75	AGC ...	SRA ...	Ribo-seq	AGC	weak	1	sORFs_org_Human	Intronic sORF	HCT116
11685	66	CTG ...	LTS ...	Ribo-seq	CTG		25	sORFs_org_Human	Intronic sORF	Blood, Flp-In_T-REx-293, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
411423	129	TCT ...	SDV ...	Ribo-seq	TCT		4	sORFs_org_Human	Intronic sORF	HCT116, HeLa, Jurkat, THP-1
11673	132	CTG ...	LDP ...	Ribo-seq	CTG		33	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11640	30	CTG ...	LRW ...	Ribo-seq	CTG	moderate	14	sORFs_org_Human	Intronic sORF	BJ, Blood, HEK293, HEK293T, HeLa, hES, LCL, MDA-MB-231, RPE-1, THP-1, U2OS
923102	111	GTC ...	VNV ...	Ribo-seq	GTC		1	sORFs_org_Human	Intronic sORF	Jurkat
11663	168	CTG ...	LLC ...	Ribo-seq	CTG		34	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11683	54	CTG ...	LQP ...	Ribo-seq	CTG		33	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11651	255	CTG ...	LCP ...	Ribo-seq	CTG		18	sORFs_org_Human	Intronic sORF	Blood, HAP1, HEK293, HeLa, hES, LCL, MM1S, RPE-1, THP-1, U2OS
923109	51	CGT ...	RQA ...	Ribo-seq	CGT	weak	1	sORFs_org_Human	Intronic sORF	Jurkat
11669	147	TTG ...	LEA ...	Ribo-seq	TTG		33	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11671	156	TTG ...	LTW ...	Ribo-seq	TTG		24	sORFs_org_Human	Intronic sORF	Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
923106	30	GGG ...	GLD ...	Ribo-seq	GGG		1	sORFs_org_Human	Intronic sORF	Jurkat
411421	204	TAC ...	YYG ...	Ribo-seq	TAC		1	sORFs_org_Human	Intronic sORF	HCT116
11675	144	CTG ...	LHS ...	Ribo-seq	CTG		22	sORFs_org_Human	Intronic sORF	Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, Jurkat, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11653	219	ATG ...	MGE ...	Ribo-seq	ATG		25	sORFs_org_Human	Intronic sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11679	126	ATG ...	MSS ...	Ribo-seq	ATG		20	sORFs_org_Human	Intronic sORF	Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
923104	66	CTC ...	LTT ...	Ribo-seq	CTC		1	sORFs_org_Human	Intronic sORF	Jurkat
11645	54	CTG ...	LGS ...	Ribo-seq	CTG	strong	30	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11665	165	CTG ...	LCQ ...	Ribo-seq	CTG		34	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11657	183	GTG ...	VDE ...	Ribo-seq	GTG		34	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11667	30	GTG ...	VPA ...	Ribo-seq	GTG	moderate	16	sORFs_org_Human	Intronic sORF	BJ, Blood, HEK293, HEK293T, HeLa, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11659	198	ATG ...	MKL ...	Ribo-seq	ATG		23	sORFs_org_Human	Intronic sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11661	192	TTG ...	LSC ...	Ribo-seq	TTG		24	sORFs_org_Human	Intronic sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11681	75	CTG ...	LAV ...	Ribo-seq	CTG		33	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11643	63	CTG ...	LEA ...	Ribo-seq	CTG	strong	31	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11655	186	GTG ...	VVD ...	Ribo-seq	GTG		34	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, loayza_puch_2016, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
11649	270	TTG ...	LRV ...	Ribo-seq	TTG		13	sORFs_org_Human	Intronic sORF	HAP1, HEK293, HeLa, LCL, MM1S, RPE-1, U2OS
11647	42	CTG ...	LNN ...	Ribo-seq	CTG	weak	30	sORFs_org_Human	Intronic sORF	BJ, Blood, Brain, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS

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