Transcript 4169 | MetamORF

Transcript

ID CARD

MetamORF ID

4169

ENST00000543545

Name

CPSF7-221

Strand

Biotype

nonsense_mediated_decay

Start-end positions

61416500-61429264

CDS Start-stop positions

61420086-61429235

CDS Relative positions

Sequences

Transcript sequence

TCC ...

Genome browsers

UCSC

Gene

HGNC:30098

Aliases

CFIM59,
CPSF7, ENSG00000149532, FLJ12529,
HGNC:30098, NCBI:79869, OFF:CPSF7

Chr 11

ORFs

10 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.
4179	186	GTG ...	VVV ...	Ribo-seq	GTG		17	sORFs_org_Human	Alternative Downstream NMD sORF	Blood, Brain, HAP1, HEK293, HeLa, hES, HFF, MDA-MB-231, RPE-1, THP-1, U2OS
4173	150	TTG ...	LEL ...	Ribo-seq	TTG		15	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, HEK293, HeLa, hES, HFF, RPE-1, U2OS
102199	81	CTG ...	LSQ ...	Ribo-seq	CTG		8	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, HEK293, HeLa, hES, HFF
4168	105	GTG ...	VRP ...	Ribo-seq	GTG		14	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, HEK293, HeLa, hES, HFF, RPE-1
407655	63	CAG ...	QAR ...	Ribo-seq	CAG		2	sORFs_org_Human	Alternative Downstream NMD sORF	HCT116, Jurkat
907954	51	CGT ...	REC ...	Ribo-seq	CGT		1	sORFs_org_Human	Alternative Downstream NMD sORF	Jurkat
4177	183	GTG ...	VVA ...	Ribo-seq	GTG		17	sORFs_org_Human	Alternative Downstream NMD sORF	Blood, Brain, HAP1, HEK293, HeLa, hES, HFF, MDA-MB-231, RPE-1, THP-1, U2OS
4171	111	GTG ...	VDV ...	Ribo-seq	GTG		15	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, HEK293, HeLa, hES, HFF, RPE-1, U2OS
4175	153	TTG ...	LLE ...	Ribo-seq	TTG		15	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, HEK293, HeLa, hES, HFF, RPE-1, U2OS
3314605	309	ATG ...	MSE ...	Predicted	ATG		1	Mackowiak2015	CDS NMD sORF

Export data