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_TRIDC2BG008500 [ TRIDC2BG008500]	2B	43659628	43663499	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_TRIDC2BG008500.11 TRIDC2BG008500.11	High	No	1373	OG0015217		Get ORF Coding potential... Type: noncoding Potential: -0.766 Folding energies... MFEI: -27.677 AMFE: -0.651 GC content %: 42.535
Tdicoccoides_TRIDC2BG008500.13 TRIDC2BG008500.13	High	No	860	OG0015217		Get ORF Coding potential... Type: noncoding Potential: -0.868 Folding energies... MFEI: -29.756 AMFE: -0.658 GC content %: 45.233
Tdicoccoides_TRIDC2BG008500.14 TRIDC2BG008500.14	High	No	680	OG0015217		Get ORF Coding potential... Type: noncoding Potential: -1.231 Folding energies... MFEI: -29.132 AMFE: -0.613 GC content %: 47.500
Tdicoccoides_TRIDC2BG008500.15 TRIDC2BG008500.15	High	No	835	OG0015217		Get ORF Coding potential... Type: noncoding Potential: -1.188 Folding energies... MFEI: -27.533 AMFE: -0.620 GC content %: 44.431
Tdicoccoides_TRIDC2BG008500.4 TRIDC2BG008500.4	Low	No	498	OG0061528		Get ORF Coding potential... Type: noncoding Potential: -0.282 Folding energies... MFEI: -30.622 AMFE: -0.646 GC content %: 47.390
Tdicoccoides_TRIDC2BG008500.9 TRIDC2BG008500.9	Low	No	491	OG0061528		Get ORF Coding potential... Type: noncoding Potential: -0.621 Folding energies... MFEI: -28.289 AMFE: -0.646 GC content %: 43.788

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_TRIDC2BG008500.4	SwissProt	2021-04-01	Q8LG98	6.93e-10
Tdicoccoides_TRIDC2BG008500.9	SwissProt	2021-04-01	Q8LG98	1.14e-9

Gene models

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