Transcript 96331 | MetamORF

Transcript

ID CARD

MetamORF ID

96331

ENSMUST00000142909

Name

Sdc4-202

Strand

Biotype

processed_transcript

Start-end positions

164425900-164443887

CDS Start-stop positions

CDS Relative positions

Sequences

Transcript sequence

CAT ...

Genome browsers

UCSC

Gene

NCBI:20971

Aliases

AA959608,
AW108331, ENSMUSG00000017009, MGI:1349164,
NCBI:20971, OFF:Sdc4, ryudocan,
S4, Sdc4, Synd4,
syndecan-4

Chr 2

ORFs

43 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.
969521	300	AGG ...	RSF ...	Ribo-seq	AGG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
965086	51	ATA ...	ILL ...	Ribo-seq	ATA	weak	1	sORFs_org_Mouse	ncRNA sORF	BMDC
967171	117	AGG ...	RHP ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	ncRNA sORF	BMDC
108848	144	GTG ...	VGG ...	Ribo-seq	GTG	strong	4	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, MEF, R1E
966347	210	TTG ...	LRR ...	Ribo-seq	TTG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
50138	48	CTG ...	LEI ...	Ribo-seq	CTG		1	sORFs_org_Mouse	ncRNA sORF	Brain
964170	138	ACG ...	TTK ...	Ribo-seq	ACG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
1419838	246	CTG ...	LDN ...	Ribo-seq	CTG		2	sORFs_org_Mouse	ncRNA sORF	Liver, R1E
104191	72	CTG ...	LLA ...	Ribo-seq	CTG		5	sORFs_org_Mouse	ncRNA sORF	BMDC, Brain, Liver, MEF, R1E
116365	42	TTG ...	LQM ...	Ribo-seq	TTG		3	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, R1E
965996	54	TTG ...	LGK ...	Ribo-seq	TTG	strong	2	sORFs_org_Mouse	ncRNA sORF	BMDC, R1E
98092	96	CTG ...	LVY ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	ncRNA sORF	Brain, R1E
1418863	141	GTG ...	VGD ...	Ribo-seq	GTG		1	sORFs_org_Mouse	ncRNA sORF	Liver
968343	222	CTG ...	LPA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
108863	150	CTG ...	LIV ...	Ribo-seq	CTG	moderate	5	sORFs_org_Mouse	ncRNA sORF	BMDC, Brain, Liver, MEF, R1E
104897	99	CTG ...	LLV ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	ncRNA sORF	Brain, R1E
966626	39	ATC ...	IHV ...	Ribo-seq	ATC	moderate	1	sORFs_org_Mouse	ncRNA sORF	BMDC
815612	204	TTG ...	LRG ...	Ribo-seq	TTG		5	sORFs_org_Mouse	ncRNA sORF	B_cell, Liver, MEF, R1E
1421793	237	GTG ...	VGD ...	Ribo-seq	GTG		2	sORFs_org_Mouse	ncRNA sORF	Liver, R1E
965330	183	CTG ...	LEE ...	Ribo-seq	CTG		3	sORFs_org_Mouse	ncRNA sORF	BMDC, Liver, R1E
109862	54	CTG ...	LLL ...	Ribo-seq	CTG		4	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, MEF, R1E
966485	195	AGG ...	RSS ...	Ribo-seq	AGG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
117036	120	TTG ...	LKP ...	Ribo-seq	TTG		3	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, R1E
96790	51	CTG ...	LLL ...	Ribo-seq	CTG		4	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, MEF, R1E
49946	108	CTG ...	LEP ...	Ribo-seq	CTG		1	sORFs_org_Mouse	ncRNA sORF	Brain
115118	102	CTG ...	LLL ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	ncRNA sORF	BMDC, Brain, R1E
96612	30	TTG ...	LVP ...	Ribo-seq	TTG		4	sORFs_org_Mouse	ncRNA sORF	BMDC, Brain, Liver, MEF
96330	57	CTG ...	LLL ...	Ribo-seq	CTG		5	sORFs_org_Mouse	ncRNA sORF	BMDC, Brain, Liver, MEF, R1E
1421611	159	TTG ...	LAA ...	Ribo-seq	TTG		2	sORFs_org_Mouse	ncRNA sORF	Liver, R1E
970812	180	ATC ...	IFE ...	Ribo-seq	ATC		1	sORFs_org_Mouse	ncRNA sORF	BMDC
965153	114	AGG ...	RLP ...	Ribo-seq	AGG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
100481	60	CTG ...	LLL ...	Ribo-seq	CTG		4	sORFs_org_Mouse	ncRNA sORF	Brain, Liver, MEF, R1E
967860	93	GTG ...	VYR ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	ncRNA sORF	BMDC, R1E
1417827	144	ATG ...	MGL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	ncRNA sORF	Liver
51407	63	TTG ...	LSS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	ncRNA sORF	Brain
1420412	135	TTG ...	LGR ...	Ribo-seq	TTG		1	sORFs_org_Mouse	ncRNA sORF	Liver
1870676	135	GTG ...	VVG ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	ncRNA sORF	R1E
965656	264	ATG ...	MTC ...	Ribo-seq	ATG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
968087	237	TTG ...	LKP ...	Ribo-seq	TTG		1	sORFs_org_Mouse	ncRNA sORF	BMDC
16256	81	CTG ...	LAA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	ncRNA sORF	Brain
971635	279	CTG ...	LEE ...	Ribo-seq	CTG		3	sORFs_org_Mouse	ncRNA sORF	BMDC, Liver, R1E
1420651	252	GTG ...	VPL ...	Ribo-seq	GTG		2	sORFs_org_Mouse	ncRNA sORF	Liver, R1E
967440	108	CTG ...	LIL ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	ncRNA sORF	BMDC, MEF, R1E

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