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_6AL_B04510C2B Traes_6AL_B04510C2B	ta_iwgsc_6al_v1_5754535	687	2707	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_6AL_B04510C2B.1 Traes_6AL_B04510C2B.1 PAC:31902023	Low	No	991		Get ORF Coding potential... Type: noncoding Potential: -1.080 Folding energies... MFEI: -30.091 AMFE: -0.666 GC content %: 45.207
Taestivum_Traes_6AL_B04510C2B.2 Traes_6AL_B04510C2B.2 PAC:31902024	Low	No	826		Get ORF Coding potential... Type: noncoding Potential: -1.135 Folding energies... MFEI: -29.153 AMFE: -0.654 GC content %: 44.552

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_6AL_B04510C2B.1	RepBase (RepeatMasker)	2014-01-31	EnSpm-11_OS
Taestivum_Traes_6AL_B04510C2B.2	RepBase (RepeatMasker)	2014-01-31	EnSpm-11_OS

Gene models

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