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_TRIDC1BG057340 [ TRIDC1BG057340]	1B	591383598	591385729	v1	Triticum dicoccoides (Ensembl Plants 51)	Coding? Yes

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_TRIDC1BG057340.1 TRIDC1BG057340.1	High	No	387	OG0354586		Get ORF Coding potential... Type: noncoding Potential: -1.103 Folding energies... MFEI: -33.463 AMFE: -0.623 GC content %: 53.747
Tdicoccoides_TRIDC1BG057340.4 TRIDC1BG057340.4	Low	No	538	OG0354587		Get ORF Coding potential... Type: noncoding Potential: -1.192 Folding energies... MFEI: -25.019 AMFE: -0.556 GC content %: 44.981
Tdicoccoides_TRIDC1BG057340.5 TRIDC1BG057340.5	High	No	390	OG0354588		Get ORF Coding potential... Type: noncoding Potential: -0.877 Folding energies... MFEI: -36.103 AMFE: -0.599 GC content %: 60.256

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_TRIDC1BG057340.4	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-hATm

Gene models

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