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
Tpratense_Tp57577_TGAC_v2_gene35163 [ Tp57577_TGAC_v2_gene35163]	Tp57577_TGAC_v2_scaf_1753	6253	7115	v2	Trifolium pratense (Phytozome 13)	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
Tpratense_Tp57577_TGAC_v2_mRNA36358 Tp57577_TGAC_v2_mRNA36358	Low	No	431	OG0349572		Get ORF Coding potential... Type: noncoding Potential: -0.276 Folding energies... MFEI: -20.719 AMFE: -0.591 GC content %: 35.035

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
Tpratense_Tp57577_TGAC_v2_mRNA36358	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-Ac

Gene models

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