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_TRIDC3AG075200 [ TRIDC3AG075200]	3A	747815157	747816063	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_TRIDC3AG075200.1 TRIDC3AG075200.1	Low	No	907	OG0003291		Get ORF Coding potential... Type: noncoding Potential: -0.910 Folding energies... MFEI: -32.381 AMFE: -0.657 GC content %: 49.283
Tdicoccoides_TRIDC3AG075200.2 TRIDC3AG075200.2	High	No	232	OG0358503		Get ORF Coding potential... Type: noncoding Potential: -0.691 Folding energies... MFEI: -51.552 AMFE: -0.720 GC content %: 71.552

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
Tdicoccoides_TRIDC3AG075200.1	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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