Transcript
Transcript
ID CARD
MetamORF ID
176368
ID
ENSMUST00000038384
Name
Ythdc1-201
Strand
+
Biotype
protein_coding
Start-end positions
86804564-86836657
CDS Start-stop positions
86804564-86835908
CDS Relative positions
-
Sequences
Transcript sequence
ATG ...
Genome browsers
ID
Aliases
A730098D12Rik,
C80342,
ENSMUSG00000035851,
MGI:2443713,
mKIAA1966,
NCBI:231386,
OFF:Ythdc1,
Ythdc1
Chr 5
ORFs
30 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. |
| 560545 | 132 |
CTG ... |
LIE ... |
Ribo-seq |
CTG | 1 |
sORFs_org_Mouse
|
|
R1E | |
| 516625 | 99 |
CTG ... |
LKT ... |
Ribo-seq |
CTG | moderate | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 1241928 | 57 |
ATC ... |
IRY ... |
Ribo-seq |
ATC | 1 |
sORFs_org_Mouse
|
|
E14 | |
| 571377 | 192 |
CTG ... |
LIE ... |
Ribo-seq |
CTG | 1 |
sORFs_org_Mouse
|
|
R1E | |
| 522574 | 60 |
TTG ... |
LGL ... |
Ribo-seq |
TTG | strong | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 563714 | 39 |
ATG ... |
MRN ... |
Ribo-seq |
ATG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver,
MEF,
MESC |
| 564679 | 135 |
ATG ... |
MLI ... |
Ribo-seq |
ATG | 1 |
sORFs_org_Mouse
|
|
R1E | |
| 566543 | 42 |
ATG ... |
MAD ... |
Ribo-seq |
ATG | strong | 1 |
Johnstone2016
|
|
Glioma,
Liver,
MEF,
MESC |
| 518963 | 114 |
TTG ... |
LTC ... |
Ribo-seq |
TTG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 519633 | 90 |
ATG ... |
MAL ... |
Ribo-seq |
ATG | strong | 2 |
sORFs_org_Mouse
Johnstone2016 |
|
Glioma,
Liver,
MEF,
MESC, Spleen_B_cell |
| 570881 | 243 |
GTG ... |
VEL ... |
Ribo-seq |
GTG | 1 |
sORFs_org_Mouse
|
|
E14 | |
| 573784 | 195 |
ATG ... |
MLI ... |
Ribo-seq |
ATG | 2 |
sORFs_org_Mouse
Johnstone2016 |
|
Glioma,
Liver,
MEF,
MESC, R1E |
|
| 522074 | 123 |
ATG ... |
MKV ... |
Ribo-seq |
ATG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 518321 | 54 |
TTG ... |
LKL ... |
Ribo-seq |
TTG | moderate | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 517166 | 84 |
CTG ... |
LTT ... |
Ribo-seq |
CTG | moderate | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 564790 | 36 |
ATG ... |
MWN ... |
Ribo-seq |
ATG | weak | 1 |
Johnstone2016
|
|
Glioma,
Liver,
MEF,
MESC |
| 180992 | 63 |
GTG ... |
VRE ... |
Ribo-seq |
GTG | moderate | 1 |
sORFs_org_Mouse
|
|
Brain |
| 518569 | 48 |
TTG ... |
LID ... |
Ribo-seq |
TTG | moderate | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 517898 | 162 |
TTG ... |
LNV ... |
Ribo-seq |
TTG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 518521 | 156 |
GTG ... |
VEL ... |
Ribo-seq |
GTG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 176367 | 33 |
ATG ... |
MGN ... |
Ribo-seq |
ATG | strong | 2 |
sORFs_org_Mouse
Johnstone2016 |
|
Brain,
Glioma,
Liver,
MEF, MESC |
| 574283 | 45 |
ATG ... |
MKQ ... |
Ribo-seq |
ATG | 2 |
sORFs_org_Mouse
|
|
E14, R1E | |
| 523077 | 105 |
CTG ... |
LKE ... |
Ribo-seq |
CTG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 518686 | 39 |
GTG ... |
VQA ... |
Ribo-seq |
GTG | moderate | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell |
| 517779 | 126 |
CTG ... |
LMK ... |
Ribo-seq |
CTG | 1 |
sORFs_org_Mouse
|
|
Spleen_B_cell | |
| 905445 | 42 |
ATC ... |
IRY ... |
Ribo-seq |
ATC | 1 |
sORFs_org_Mouse
|
|
BMDC | |
| 573982 | 99 |
ATG ... |
MPH ... |
Ribo-seq |
ATG | 1 |
Johnstone2016
|
|
Glioma,
Liver,
MEF,
MESC |
|
| 1513668 | 54 |
ATG ... |
MRM ... |
Ribo-seq |
ATG | 2 |
sORFs_org_Mouse
Johnstone2016 |
|
Glioma,
Liver,
MEF,
MESC, NSC |
|
| 902779 | 66 |
ATT ... |
ILS ... |
Ribo-seq |
ATT | 1 |
sORFs_org_Mouse
|
|
BMDC | |
| 175624 | 30 |
ATG ... |
MKQ ... |
Ribo-seq |
ATG | 1 |
sORFs_org_Mouse
|
|
R1E |
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