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_TRIDC4AG001370 [ TRIDC4AG001370]	4A	6338593	6348307	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_TRIDC4AG001370.10 TRIDC4AG001370.10	High	No	1037	OG0009434		Get ORF Coding potential... Type: noncoding Potential: -0.925 Folding energies... MFEI: -29.190 AMFE: -0.640 GC content %: 45.612
Tdicoccoides_TRIDC4AG001370.2 TRIDC4AG001370.2	Low	No	794	OG0359747		Get ORF Coding potential... Type: noncoding Potential: -0.013 Folding energies... MFEI: -50.743 AMFE: -0.718 GC content %: 70.655
Tdicoccoides_TRIDC4AG001370.4 TRIDC4AG001370.4	High	No	274	OG0359748		Get ORF Coding potential... Type: noncoding Potential: -0.724 Folding energies... MFEI: -31.058 AMFE: -0.539 GC content %: 57.664
Tdicoccoides_TRIDC4AG001370.5 TRIDC4AG001370.5	High	No	443	OG0359749		Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -28.284 AMFE: -0.636 GC content %: 44.470
Tdicoccoides_TRIDC4AG001370.8 TRIDC4AG001370.8	Low	No	1303	OG0023055		Get ORF Coding potential... Type: noncoding Potential: -0.706 Folding energies... MFEI: -30.476 AMFE: -0.647 GC content %: 47.122
Tdicoccoides_TRIDC4AG001370.9 TRIDC4AG001370.9	Low	No	1145	OG0023055		Get ORF Coding potential... Type: noncoding Potential: -0.706 Folding energies... MFEI: -29.100 AMFE: -0.630 GC content %: 46.201

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_TRIDC4AG001370.2	SwissProt	2021-04-01	Q0IIS3	1.23e-4
Tdicoccoides_TRIDC4AG001370.8	SwissProt	2021-04-01	Q9KWQ6	3.02e-5
Tdicoccoides_TRIDC4AG001370.9	SwissProt	2021-04-01	Q9KWQ6	2.01e-5

Gene models

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