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_TRIDC1BG021140 [ TRIDC1BG021140]	1B	178938107	178941043	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_TRIDC1BG021140.1 TRIDC1BG021140.1	Low	No	1017	OG0000033		Get ORF Coding potential... Type: noncoding Potential: -0.992 Folding energies... MFEI: -29.095 AMFE: -0.666 GC content %: 43.658
Tdicoccoides_TRIDC1BG021140.2 TRIDC1BG021140.2	Low	No	824	OG0000033		Get ORF Coding potential... Type: noncoding Potential: -0.936 Folding energies... MFEI: -27.682 AMFE: -0.654 GC content %: 42.354
Tdicoccoides_TRIDC1BG021140.3 TRIDC1BG021140.3	High	No	865	OG0000033		Get ORF Coding potential... Type: noncoding Potential: -0.900 Folding energies... MFEI: -28.913 AMFE: -0.643 GC content %: 44.971
Tdicoccoides_TRIDC1BG021140.4 TRIDC1BG021140.4	High	No	647	OG0354063		Get ORF Coding potential... Type: noncoding Potential: -0.929 Folding energies... MFEI: -30.015 AMFE: -0.652 GC content %: 46.059
Tdicoccoides_TRIDC1BG021140.5 TRIDC1BG021140.5	High	No	334	OG0000033		Get ORF Coding potential... Type: noncoding Potential: -0.701 Folding energies... MFEI: -27.365 AMFE: -0.644 GC content %: 42.515
Tdicoccoides_TRIDC1BG021140.6 TRIDC1BG021140.6	High	No	365	OG0000033		Get ORF Coding potential... Type: noncoding Potential: -0.751 Folding energies... MFEI: -26.685 AMFE: -0.632 GC content %: 42.192

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_TRIDC1BG021140.1	SwissProt	2021-04-01	Q8L9S1	1.0e-3
Tdicoccoides_TRIDC1BG021140.2	SwissProt	2021-04-01	Q8L9S1	7.23e-4

Gene models

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