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_2BS_A2AC8AAE5 Traes_2BS_A2AC8AAE5	ta_iwgsc_2bs_v1_5244703	605	1695	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_2BS_A2AC8AAE5.1 Traes_2BS_A2AC8AAE5.1 PAC:31752822	Low	Yes	767		Get ORF Coding potential... Type: noncoding Potential: -0.097 Folding energies... MFEI: -28.462 AMFE: -0.652 GC content %: 43.677
Taestivum_Traes_2BS_A2AC8AAE5.2 Traes_2BS_A2AC8AAE5.2 PAC:31752823	Low	No	569		Get ORF Coding potential... Type: noncoding Potential: -0.014 Folding energies... MFEI: -26.942 AMFE: -0.594 GC content %: 45.343
Taestivum_Traes_2BS_A2AC8AAE5.3 Traes_2BS_A2AC8AAE5.3 PAC:31752824	Low	No	631		Get ORF Coding potential... Type: noncoding Potential: -0.090 Folding energies... MFEI: -26.941 AMFE: -0.592 GC content %: 45.483

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_2BS_A2AC8AAE5.1	Rfam	11.0	MIR1122	1.0e-5

Gene models

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