Transcript 56670 | MetamORF

Transcript

ID CARD

MetamORF ID

56670

ENSMUST00000185001

Name

Pnisr-213

Strand

Biotype

nonsense_mediated_decay

Start-end positions

21848048-21873755

CDS Start-stop positions

21854358-21869635

CDS Relative positions

Sequences

Transcript sequence

ATC ...

Genome browsers

UCSC

Gene

NCBI:66625

Aliases

5730406M06Rik,
AA673174, ENSMUSG00000028248, MGI:1913875,
NCBI:66625, OFF:Pnisr, Pinsr,
Pnisr, Sfrs18, Srsf18

Chr 4

ORFs

22 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.
823642	198	TTG ...	LAQ ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1227349	111	AAG ...	KRE ...	Ribo-seq	AAG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	E14
1176891	117	TTG ...	LLT ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative CDS NMD sORF	v6-5
156478	108	TTG ...	LDC ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
56669	93	TTG ...	LSK ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Testis
1177716	114	CTG ...	LTK ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative CDS NMD sORF	v6-5
1177254	84	CTG ...	LDV ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative CDS NMD sORF	v6-5
824331	129	TTG ...	LAT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
58679	57	TTG ...	LER ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative NMD sORF Upstream	Testis, v6-5
150966	39	GTG ...	VDA ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5
1177271	117	GTG ...	VSS ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
822898	96	CTG ...	LMM ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
57434	36	GTG ...	VAT ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative NMD sORF Upstream	BMDC, Testis, v6-5
150118	90	GTG ...	VGS ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
147384	129	CTG ...	LGC ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
160198	69	GTG ...	VAA ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5
510686	42	GTG ...	VMK ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
1229176	189	AGG ...	RSD ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Downstream NMD sORF	E14
512055	39	ATG ...	MKR ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
822811	153	ATG ...	MDQ ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
1178525	126	CTG ...	LEA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
155221	60	ATG ...	MAL ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5

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