Transcript 9476 | MetamORF

Transcript

ID CARD

MetamORF ID

9476

ENST00000470443

Name

PABPC4-210

Strand

Biotype

nonsense_mediated_decay

Start-end positions

39565106-39575781

CDS Start-stop positions

39571230-

CDS Relative positions

Sequences

Transcript sequence

CAA ...

Genome browsers

UCSC

Gene

HGNC:8557

Aliases

APP-1,
ENSG00000090621, HGNC:8557, iPABP,
NCBI:8761, OFF:PABPC4, PABPC4

Chr 1

ORFs

14 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.
1518772	66	TTG ...	LWA ...	Ribo-seq	TTG	moderate	2	sORFs_org_Human	NMD sORF	BJ
484321	45	ATG ...	MLP ...	Ribo-seq	ATG	weak	4	sORFs_org_Human	NMD sORF	BJ, HEK293T, MDA-MB-231
9475	87	CTG ...	LDK ...	Ribo-seq	CTG		22	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, RPE-1, THP-1, U2OS
1518760	42	TTG ...	LPW ...	Ribo-seq	TTG	moderate	3	sORFs_org_Human	NMD sORF	BJ, MDA-MB-231
484331	33	CTG ...	LKK ...	Ribo-seq	CTG	weak	7	sORFs_org_Human	NMD sORF	BJ, HEK293, HEK293T, HeLa, MDA-MB-231, THP-1
298696	33	CTG ...	LLL ...	Ribo-seq	CTG		8	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, HEK293, LCL, MDA-MB-231, THP-1
640982	57	TTG ...	LAS ...	Ribo-seq	TTG	strong	2	sORFs_org_Human	NMD sORF	MDA-MB-231, THP-1
9492	177	GTG ...	VIK ...	Ribo-seq	GTG		26	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
9478	111	GTG ...	VGN ...	Ribo-seq	GTG		23	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
9494	198	TTG ...	LDT ...	Ribo-seq	TTG		26	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, guo_2014, HAP1, HEK293, HEK293T, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
484326	75	ATG ...	MDA ...	Ribo-seq	ATG	moderate	3	sORFs_org_Human	NMD sORF	BJ, HEK293T
640984	75	ATG ...	MEE ...	Ribo-seq	ATG	strong	2	sORFs_org_Human	NMD sORF	MDA-MB-231, THP-1
298700	45	ATG ...	MIL ...	Ribo-seq	ATG		12	sORFs_org_Human	NMD sORF	Blood, Flp-In_T-REx-293, HEK293, HeLa, hES, LCL, MDA-MB-231, RPE-1, THP-1
9483	126	TTG ...	LRK ...	Ribo-seq	TTG		23	sORFs_org_Human	NMD sORF	BJ, Blood, Flp-In_T-REx-293, HAP1, HEK293, HeLa, hES, HFF, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS

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