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_TRIDC5AG023160 [ TRIDC5AG023160]	5A	304694981	304699590	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_TRIDC5AG023160.10 TRIDC5AG023160.10	Low	No	1169	OG0003767		Get ORF Coding potential... Type: noncoding Potential: -0.879 Folding energies... MFEI: -24.953 AMFE: -0.644 GC content %: 38.751
Tdicoccoides_TRIDC5AG023160.3 TRIDC5AG023160.3	High	No	601	OG0003767		Get ORF Coding potential... Type: noncoding Potential: -1.066 Folding energies... MFEI: -22.879 AMFE: -0.578 GC content %: 39.601

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_TRIDC5AG023160.10	RepBase (RepeatMasker)	2014-01-31	LTR/ERV1

Gene models

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