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
Tdicoccoides_TRIDC6AG053020 [ TRIDC6AG053020]	6A	585413532	585417892	v1	Triticum dicoccoides (Ensembl Plants 51)	Coding? No

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
Tdicoccoides_TRIDC6AG053020.1 TRIDC6AG053020.1	Low	No	564	OG0002752		Get ORF Coding potential... Type: noncoding Potential: -1.285 Folding energies... MFEI: -25.355 AMFE: -0.584 GC content %: 43.440
Tdicoccoides_TRIDC6AG053020.2 TRIDC6AG053020.2	Low	No	664	OG0002752		Get ORF Coding potential... Type: noncoding Potential: -1.305 Folding energies... MFEI: -26.446 AMFE: -0.580 GC content %: 45.633
Tdicoccoides_TRIDC6AG053020.3 TRIDC6AG053020.3	Low	No	755	OG0002752		Get ORF Coding potential... Type: noncoding Potential: -1.319 Folding energies... MFEI: -26.066 AMFE: -0.584 GC content %: 44.636
Tdicoccoides_TRIDC6AG053020.4 TRIDC6AG053020.4	High	No	599	OG0002752		Get ORF Coding potential... Type: noncoding Potential: -1.293 Folding energies... MFEI: -19.549 AMFE: -0.494 GC content %: 39.566
Tdicoccoides_TRIDC6AG053020.5 TRIDC6AG053020.5	High	No	339	OG0002752		Get ORF Coding potential... Type: noncoding Potential: -1.191 Folding energies... MFEI: -40.059 AMFE: -0.626 GC content %: 64.012

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
Tdicoccoides_TRIDC6AG053020.1	RepBase (RepeatMasker)	2014-01-31	RC/Helitron
Tdicoccoides_TRIDC6AG053020.2	RepBase (RepeatMasker)	2014-01-31	RC/Helitron
Tdicoccoides_TRIDC6AG053020.3	RepBase (RepeatMasker)	2014-01-31	RC/Helitron

Gene models

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