Transcript 7709 | MetamORF

Transcript

ID CARD

MetamORF ID

7709

ENSMUST00000001834

Name

Rtcb-201

Strand

Biotype

protein_coding

Start-end positions

85938637-85957823

CDS Start-stop positions

85939012-85957707

CDS Relative positions

Sequences

Transcript sequence

GAG ...

Genome browsers

UCSC

Gene

NCBI:28088

Aliases

AI255213,
AI463255, D10Wsu52e, ENSMUSG00000001783,
FAAP, HSPC117, MGI:106379,
NCBI:28088, OFF:Rtcb, Rtcb

Chr 10

ORFs

55 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.
242087	45	TTG ...	LQS ...	Ribo-seq	TTG		9	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, R1E, Spleen_B_cell
1790843	33	ATG ...	MLG ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
824127	57	GTG ...	VVS ...	Ribo-seq	GTG	strong	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, Neutrophil
418569	81	ACG ...	TMS ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	C2C12
829495	33	CTG ...	LVP ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	InCDS Overlapping sORF	B_cell, MEF
636198	66	TTG ...	LQS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
639042	144	CTG ...	LKT ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, R1E
553678	30	ATG ...	MSI ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, NSC
1516292	36	ATG ...	MML ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, NSC
1270991	87	ACG ...	TDA ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1659675	36	CTG ...	LRP ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, R1E
262648	81	GTG ...	VRS ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, R1E
220509	78	ATG ...	MSY ...	Ribo-seq	ATG		16	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
1282810	147	ATG ...	MGR ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
1240254	45	ATA ...	IRS ...	Ribo-seq	ATA		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1282038	63	ATC ...	INS ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1780412	30	CTG ...	LGS ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
189807	108	ATG ...	MPG ...	Ribo-seq	ATG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, E14, MEF, Neutrophil, R1E, v6-5
843480	39	GTG ...	VLG ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell
519533	54	ATG ...	MSM ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	Spleen_B_cell
630133	30	TTG ...	LAM ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	Liver
1282463	189	ATG ...	MCR ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, MEF
1282990	123	AGG ...	RSM ...	Ribo-seq	AGG		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
636594	153	ATG ...	MPG ...	Ribo-seq	ATG		4	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, E14, Glioma, Liver, MEF, MESC
836235	69	GTG ...	VDC ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell, Neutrophil
1082872	78	TTG ...	LCS ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, v6-5
1283370	159	AAG ...	KAM ...	Ribo-seq	AAG		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
289359	72	CTG ...	LWI ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, R1E, Spleen_B_cell
1480447	192	ATG ...	MMC ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	BMDC, Glioma, Liver, MEF, MESC
637130	126	GTG ...	VRS ...	Ribo-seq	GTG		2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell
618305	33	CTG ...	LMS ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	NSC
1282134	90	ATA ...	IRS ...	Ribo-seq	ATA		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
1480254	102	GTG ...	VLS ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain
1662901	36	GTG ...	VLC ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
281485	36	TTG ...	LVA ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Spleen_B_cell
7708	72	CTG ...	LRP ...	Ribo-seq	CTG		5	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF, Skin_tumor, v6-5
286958	75	TTG ...	LLW ...	Ribo-seq	TTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, R1E, Spleen_B_cell
77495	33	TTG ...	LLP ...	Ribo-seq	TTG		10	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, MEF, R1E, Spleen_B_cell, Testis
612862	63	TTG ...	LPK ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	NSC
638142	117	ATG ...	MEG ...	Ribo-seq	ATG		2	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell
1281981	66	ATT ...	IIN ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
445153	54	TTG ...	LLP ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Spleen_B_cell
1277769	90	AGG ...	RST ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1233814	78	AGG ...	RSM ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1230911	114	AAG ...	KAM ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
530215	66	ATG ...	MRF ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, Spleen_B_cell
264400	72	ATG ...	MEG ...	Ribo-seq	ATG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, R1E
636468	96	ATG ...	MSY ...	Ribo-seq	ATG		8	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, E14, Glioma, Liver, MEF, MESC, NSC
266046	33	GTG ...	VAP ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF
418608	99	ACG ...	TMS ...	Ribo-seq	ACG		1	sORFs_org_Mouse	InCDS Overlapping sORF	C2C12
418468	51	ATA ...	IKT ...	Ribo-seq	ATA		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, C2C12
624208	57	ATG ...	MTG ...	Ribo-seq	ATG	weak	4	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
1282312	135	AGG ...	RST ...	Ribo-seq	AGG		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
179466	99	CTG ...	LKT ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, MEF, Neutrophil, R1E, v6-5
825211	78	GTG ...	VER ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	B_cell

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