Metam
ORF

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Transcript

Transcript

ID CARD

MetamORF ID

1000

ID

ENSMUST00000142837

Name

Dennd4c-204

Strand

+

Biotype

protein_coding

Start-end positions

86774255-86849055

CDS Start-stop positions

86774255-86848906

CDS Relative positions

-

Sequences

Transcript sequence

ATG ...

Gene

ID

NCBI:329877

Aliases

1700065A05Rik,
AA420392, Dennd4c, ENSMUSG00000038024,
MGI:1914769, NCBI:329877, OFF:Dennd4c


Chr 4

ORFs

26 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.

999 33

TTG ...

LTW ...

Ribo-seq
TTG moderate 2 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
MEF, Skin_tumor
1657483 93

TTG ...

LEW ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1659484 87

TTG ...

LEW ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1652450 48

ATG ...

MLS ...

Ribo-seq
ATG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1508744 39

TTG ...

LLT ...

Ribo-seq
TTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
NSC
1658391 39

TTG ...

LSA ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1655387 72

TTG ...

LIF ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1654466 66

CTG ...

LTV ...

Ribo-seq
CTG weak 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
MEF
1655960 45

TTG ...

LSA ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1655101 63

ATG ...

MTH ...

Ribo-seq
ATG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1081207 30

GTG ...

VVY ...

Ribo-seq
GTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
v6-5
1657862 42

ATG ...

MLS ...

Ribo-seq
ATG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1081176 45

GTG ...

VDE ...

Ribo-seq
GTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
v6-5
1083583 66

TTG ...

LIF ...

Ribo-seq
TTG 2 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF, v6-5
1655515 45

ATG ...

MSQ ...

Ribo-seq
ATG weak 2 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
Glioma, Liver, MEF,
MESC
1653603 42

CTG ...

LNT ...

Ribo-seq
CTG weak 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1177905 42

GTG ...

VLS ...

Ribo-seq
GTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
v6-5
1652212 51

GTG ...

VSP ...

Ribo-seq
GTG weak 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1654789 72

CTG ...

LRG ...

Ribo-seq
CTG weak 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
MEF
1655954 36

TTG ...

LTW ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF
1081406 72

ATG ...

MLG ...

Ribo-seq
ATG weak 2 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
Glioma, Liver, MEF,
MESC, v6-5
1081262 69

CTG ...

LGS ...

Ribo-seq
CTG strong 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
v6-5
1655820 48

CTG ...

LKV ...

Ribo-seq
CTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
MEF
1657758 57

ATG ...

MTH ...

Ribo-seq
ATG 2 sORFs_org_Mouse
Johnstone2016
    InCDS
    Overlapping
    sORF
Glioma, Liver, MEF,
MESC
1509441 30

GTG ...

VQS ...

Ribo-seq
GTG moderate 1 sORFs_org_Mouse
    Alternative
    InCDS
    Overlapping
    sORF
NSC
1658387 30

TTG ...

LTW ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    InCDS
    Overlapping
    sORF
MEF

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