Metam
ORF

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Transcript

Transcript

ID CARD

MetamORF ID

508919

ID

ENSMUST00000148619

Name

Yars-208

Strand

+

Biotype

retained_intron

Start-end positions

129212244-129215726

CDS Start-stop positions

-

CDS Relative positions

-

Sequences

Transcript sequence

AGA ...

Gene

ID

NCBI:107271

Aliases

AL024047,
AU018965, ENSMUSG00000028811, MGI:2147627,
NCBI:107271, OFF:Yars, Yars,
Yars1


Chr 4

ORFs

24 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.

1684946 51

TTG ...

LFT ...

Ribo-seq
TTG moderate 2 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E
911 75

GTG ...

VLC ...

Ribo-seq
GTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
55876 159

GTG ...

VGE ...

Ribo-seq
GTG strong 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
511848 33

ATG ...

MWG ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
57995 96

CTG ...

LQD ...

Ribo-seq
CTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
676 81

GTG ...

VVV ...

Ribo-seq
GTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
825 63

CTG ...

LKP ...

Ribo-seq
CTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
973 72

CTG ...

LCN ...

Ribo-seq
CTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
819 78

GTG ...

VVL ...

Ribo-seq
GTG strong 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
158584 96

CTG ...

LPK ...

Ribo-seq
CTG 2 sORFs_org_Mouse
    Intronic
    sORF
R1E, Spleen_B_cell
899795 168

AAG ...

KID ...

Ribo-seq
AAG moderate 1 sORFs_org_Mouse
    Intronic
    sORF
BMDC
798 84

CTG ...

LVV ...

Ribo-seq
CTG strong 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
511920 63

ATG ...

MQI ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
159813 84

CTG ...

LPR ...

Ribo-seq
CTG 2 sORFs_org_Mouse
    Intronic
    sORF
R1E, Spleen_B_cell
510719 48

ATG ...

MWR ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
157192 33

GTG ...

VWA ...

Ribo-seq
GTG 2 sORFs_org_Mouse
    Intronic
    sORF
R1E, Spleen_B_cell
58808 174

GTG ...

VEK ...

Ribo-seq
GTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
58339 39

GTG ...

VDS ...

Ribo-seq
GTG strong 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
57935 111

GTG ...

VPK ...

Ribo-seq
GTG weak 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
1556161 132

CTG ...

LTP ...

Ribo-seq
CTG 1 sORFs_org_Mouse
    Intronic
    sORF
R1E
56685 135

GTG ...

VVS ...

Ribo-seq
GTG strong 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
511585 36

TTG ...

LMW ...

Ribo-seq
TTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
57718 132

GTG ...

VSG ...

Ribo-seq
GTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
MEF, R1E, Spleen_B_cell
511307 54

TTG ...

LCP ...

Ribo-seq
TTG moderate 4 sORFs_org_Mouse
    Intronic
    sORF
BMDC, MEF, Spleen_B_cell

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