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_TRIDC2BG039330 [ TRIDC2BG039330]	2B	375879748	375883195	v1	Triticum dicoccoides (Ensembl Plants 51)	Coding? No

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_TRIDC2BG039330.1 TRIDC2BG039330.1	Low	No	3312	OG0015228		Get ORF Coding potential... Type: noncoding Potential: -0.632 Folding energies... MFEI: -25.978 AMFE: -0.631 GC content %: 41.184
Tdicoccoides_TRIDC2BG039330.2 TRIDC2BG039330.2	Low	No	3440	OG0015228		Get ORF Coding potential... Type: noncoding Potential: -0.644 Folding energies... MFEI: -25.971 AMFE: -0.627 GC content %: 41.395
Tdicoccoides_TRIDC2BG039330.3 TRIDC2BG039330.3	High	No	2488	OG0015228		Get ORF Coding potential... Type: noncoding Potential: -1.346 Folding energies... MFEI: -22.106 AMFE: -0.594 GC content %: 37.219
Tdicoccoides_TRIDC2BG039330.4 TRIDC2BG039330.4	High	No	2511	OG0015228		Get ORF Coding potential... Type: noncoding Potential: -1.346 Folding energies... MFEI: -21.593 AMFE: -0.582 GC content %: 37.077

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_TRIDC2BG039330.1	SwissProt	2021-04-01	Q9S9P3	7.68e-6
Tdicoccoides_TRIDC2BG039330.2	SwissProt	2021-04-01	Q9S9P3	8.04e-6

Gene models

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