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_TRIDC6BG048450 [ TRIDC6BG048450]	6B	518770551	518779814	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_TRIDC6BG048450.11 TRIDC6BG048450.11	High	No	589	OG0004817		Get ORF Coding potential... Type: noncoding Potential: -1.072 Folding energies... MFEI: -25.297 AMFE: -0.562 GC content %: 44.992
Tdicoccoides_TRIDC6BG048450.5 TRIDC6BG048450.5	Low	No	1342	OG0365578		Get ORF Coding potential... Type: noncoding Potential: -0.938 Folding energies... MFEI: -28.599 AMFE: -0.636 GC content %: 44.933
Tdicoccoides_TRIDC6BG048450.9 TRIDC6BG048450.9	Low	No	1847	OG0004817		Get ORF Coding potential... Type: noncoding Potential: -1.269 Folding energies... MFEI: -24.846 AMFE: -0.639 GC content %: 38.874

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_TRIDC6BG048450.5	RepBase (RepeatMasker)	2014-01-31	LINE/L1
Tdicoccoides_TRIDC6BG048450.9	RepBase (RepeatMasker)	2014-01-31	SINE/tRNA

Gene models

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