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_TRIDC6BG010350 [ TRIDC6BG010350]	6B	52363990	52368783	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_TRIDC6BG010350.1 TRIDC6BG010350.1	Low	No	2164	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.327 Folding energies... MFEI: -26.645 AMFE: -0.669 GC content %: 39.834
Tdicoccoides_TRIDC6BG010350.10 TRIDC6BG010350.10	High	No	1880	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.262 Folding energies... MFEI: -26.287 AMFE: -0.655 GC content %: 40.106
Tdicoccoides_TRIDC6BG010350.11 TRIDC6BG010350.11	High	No	544	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -28.051 AMFE: -0.633 GC content %: 44.301
Tdicoccoides_TRIDC6BG010350.12 TRIDC6BG010350.12	High	No	1881	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.332 Folding energies... MFEI: -26.103 AMFE: -0.666 GC content %: 39.181
Tdicoccoides_TRIDC6BG010350.2 TRIDC6BG010350.2	High	No	778	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -0.985 Folding energies... MFEI: -28.483 AMFE: -0.607 GC content %: 46.915
Tdicoccoides_TRIDC6BG010350.3 TRIDC6BG010350.3	High	No	2117	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.268 Folding energies... MFEI: -26.486 AMFE: -0.654 GC content %: 40.482
Tdicoccoides_TRIDC6BG010350.4 TRIDC6BG010350.4	High	No	2103	OG0004553		Get ORF Coding potential... Type: noncoding Potential: -1.318 Folding energies... MFEI: -26.529 AMFE: -0.654 GC content %: 40.561

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_TRIDC6BG010350.1	RepBase (RepeatMasker)	2014-01-31	LINE/L1

Gene models

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