Metam
ORF

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Transcript

Transcript

ID CARD

MetamORF ID

17

ID

ENSMUST00000198128

Name

S100a6-203

Strand

+

Biotype

protein_coding

Start-end positions

90613305-90614414

CDS Start-stop positions

90613767-90614322

CDS Relative positions

-

Sequences

Transcript sequence

CCT ...

Gene

ID

NCBI:20200

Aliases

2A9,
5B10, Cacy, CALCYCLIN,
ENSMUSG00000001025, MGI:1339467, NCBI:20200,
OFF:S100a6, PRA, S100a6


Chr 3

ORFs

5 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.

16 33

ATG ...

MIW ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
BMDC, C2C12, Glioma,
Liver, MEF, MESC,
Skin_tumor
334 69

ATG ...

MPS ...

Ribo-seq
ATG moderate 2 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
Glioma, Liver, MEF,
MESC, Skin_tumor
132726 84

GTG ...

VIS ...

Ribo-seq
GTG weak 2 sORFs_org_Mouse
    Alternative
    Overlapping
    sORF
    Upstream
3T3, MEF
140014 30

ATG ...

MSP ...

Ribo-seq
ATG moderate 2 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
BMDC, Glioma, Liver,
MEF, MESC
750206 63

TTG ...

LAF ...

Ribo-seq
TTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
3T3

Export data

Identification method

Predicted

Ribo-seq

MS

Kozak context

moderate

weak

strong

optimal

Start Codon

ORF length

ORF Annotations

Reading frame

Alternative

Relative position

CDS

Downstream

InCDS

Intronic

NewCDS

Overlapping

Upstream

Biotype

Intergenic

ncRNA

NMD

NSD

Pseudogene

Length

sORF

Cell types

3T3

B_cell

BMDC

Brain

C2C12

E14

Glioma

Liver

MEF

MESC

Neutrophil

NSC

R1E

Skin_tumor

Spleen_B_cell

Testis

v6-5