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	Source	Assembly	Species	Details
Taestivum_Traes_1AL_2A72FFFD6 Traes_1AL_2A72FFFD6	ta_iwgsc_1al_v2_3946940	342	1384	Phytozome	v2.2	Triticum_aestivum	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	Sequence	Details
Taestivum_Traes_1AL_2A72FFFD6.1 Traes_1AL_2A72FFFD6.1 PAC:31963223	Low	Yes	695		Get ORF Coding potential... Type: noncoding Potential: -1.162 Folding energies... MFEI: -29.568 AMFE: -0.719 GC content %: 41.151
Taestivum_Traes_1AL_2A72FFFD6.2 Traes_1AL_2A72FFFD6.2 PAC:31963224	Low	No	448		Get ORF Coding potential... Type: noncoding Potential: -1.115 Folding energies... MFEI: -26.339 AMFE: -0.652 GC content %: 40.402

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
Taestivum_Traes_1AL_2A72FFFD6.1	Rfam	11.0	MIR1122	2.2e-7

Gene models

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