Transcript 61959 | MetamORF

Transcript

ID CARD

MetamORF ID

61959

ENSMUST00000156363

Name

Ythdc1-208

Strand

Biotype

nonsense_mediated_decay

Start-end positions

86804496-86836659

CDS Start-stop positions

86804564-86828173

CDS Relative positions

Sequences

Transcript sequence

GTC ...

Genome browsers

UCSC

Gene

NCBI:231386

Aliases

A730098D12Rik,
C80342, ENSMUSG00000035851, MGI:2443713,
mKIAA1966, NCBI:231386, OFF:Ythdc1,
Ythdc1

Chr 5

ORFs

54 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.
518521	156	GTG ...	VEL ...	Ribo-seq	GTG	strong	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5
905445	42	ATC ...	IRY ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
517166	84	CTG ...	LTT ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1062014	111	TTG ...	LDD ...	Ribo-seq	TTG		2	sORFs_org_Mouse	InCDS NMD Overlapping sORF	MEF, Neutrophil
62979	156	TTG ...	LYQ ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	CDS NMD sORF	Brain, E14, v6-5
1661669	99	TTG ...	LTE ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	MEF
517898	162	TTG ...	LNV ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
518963	114	TTG ...	LTC ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5
560545	132	CTG ...	LIE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1236544	39	AAG ...	KRS ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	E14
829597	105	GTG ...	VAA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	E14
1237209	162	ATC ...	IRR ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
1236935	51	AAG ...	KKP ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
517779	126	CTG ...	LMK ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
566543	42	ATG ...	MAD ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
64107	111	TTG ...	LSS ...	Ribo-seq	TTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Brain, E14, MEF, Testis, v6-5
563714	39	ATG ...	MRN ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1237759	78	ACG ...	TRQ ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
516625	99	CTG ...	LKT ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
518321	54	TTG ...	LKL ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
522574	60	TTG ...	LGL ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
175624	30	ATG ...	MKQ ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, MEF
569783	33	ATG ...	MSF ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1662674	63	GTG ...	VVL ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1085416	258	GTG ...	VDE ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, v6-5
1236870	84	AAG ...	KRA ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
562393	168	TTG ...	LNL ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
62080	177	GTG ...	VVS ...	Ribo-seq	GTG	strong	4	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, MEF, Testis, v6-5
1237199	213	AGG ...	RMR ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
1238494	39	ATT ...	IDY ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
1236587	33	GTG ...	VLK ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
1311295	48	TTG ...	LTI ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Downstream NMD sORF	E14
1664803	36	TTG ...	LPR ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
1238980	201	AGG ...	RMK ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
61958	69	GTG ...	VLP ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Brain, E14, MEF, Testis, v6-5
1235271	282	ATG ...	MQK ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
63925	183	CTG ...	LFP ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	CDS NMD sORF	Brain, E14, v6-5
1088663	30	CTG ...	LGA ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
519633	90	ATG ...	MAL ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
176367	33	ATG ...	MGN ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, v6-5
563272	63	GTG ...	VNY ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1089438	93	CTG ...	LWS ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	v6-5
1240385	33	AAG ...	KDP ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Downstream NMD sORF	E14
182537	60	GTG ...	VGR ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	CDS NMD sORF	v6-5
902779	66	ATT ...	ILS ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
1235023	252	ATG ...	MQR ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
569983	69	TTG ...	LPD ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1237065	102	ATC ...	ILT ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
1239759	150	AAG ...	KGM ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
1238715	138	ATG ...	MTP ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
522074	123	ATG ...	MKV ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1085432	39	TTG ...	LQM ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, v6-5
564790	36	ATG ...	MWN ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1237835	81	ATG ...	MIF ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Downstream NMD sORF	E14

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