GreeNC

Gene information

This table contains information about coordinates, assembly and annotation regarding the lncRNA-transcribing gene. In details, it shows whether this this gene transcribes any protein-coding transcript.

Gene alias / name	Chrom.	Start	End	Assembly	Species	Details
Atauschii_AET2Gv20361400 [ AET2Gv20361400]	2D	126473846	126734798	v4	Aegilops tauschii (Ensembl Plants 51)	Coding? Yes

Transcript features

This table shows how a lncRNA has been classified (high/low confidence) or whether it has been classified as pre-miRNA (go to FAQ for classification criteria). Besides, it displays the lncRNA length and sequence as well as information about the ORF, the coding potential calculated by the Coding Potential Calculator (CPC), and the folding energies calculated by RNAfold.

Transcript alias / name	Confidence	Pre-miRNA	Length	Orthologous group	Sequence	Details
Atauschii_AET2Gv20361400.1 AET2Gv20361400.1	Low	No	228	OG0024624		Get ORF Coding potential... Type: noncoding Potential: -0.524 Folding energies... MFEI: -42.939 AMFE: -0.620 GC content %: 69.298
Atauschii_AET2Gv20361400.5 AET2Gv20361400.5	Low	No	409	OG0070186		Get ORF Coding potential... Type: noncoding Potential: -0.981 Folding energies... MFEI: -33.936 AMFE: -0.628 GC content %: 54.034
Atauschii_AET2Gv20361400.6 AET2Gv20361400.6	High	No	453	OG0070187		Get ORF Coding potential... Type: noncoding Potential: -0.899 Folding energies... MFEI: -33.377 AMFE: -0.591 GC content %: 56.512
Atauschii_AET2Gv20361400.7 AET2Gv20361400.7	High	No	215	OG0070188		Get ORF Coding potential... Type: noncoding Potential: -0.993 Folding energies... MFEI: -31.070 AMFE: -0.522 GC content %: 59.535
Atauschii_AET2Gv20361400.8 AET2Gv20361400.8	High	No	563	OG0070189		Get ORF Coding potential... Type: noncoding Potential: -0.478 Folding energies... MFEI: -41.439 AMFE: -0.678 GC content %: 61.101

Matches to external databases

The lncRNAs from GreeNC have been analysed against the following databases: SwissProt, miRBase, Rfam, RepBase (RepeatMasker), NONCODE, and lncRNAdb. This table displays any association with these databases.

Transcript alias	Database	Version	Hit	Evalue
Atauschii_AET2Gv20361400.1	SwissProt	2021-04-01	Q5G8Z3	9.72e-7
Atauschii_AET2Gv20361400.5	SwissProt	2021-04-01	Q5G8Z3	2.75e-6

Gene models

Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).