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_TRIDC4BG025870 [ TRIDC4BG025870]	4B	252269620	252272146	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_TRIDC4BG025870.1 TRIDC4BG025870.1	Low	No	2497	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -1.140 Folding energies... MFEI: -28.294 AMFE: -0.666 GC content %: 42.491
Tdicoccoides_TRIDC4BG025870.2 TRIDC4BG025870.2	Low	No	1663	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -0.958 Folding energies... MFEI: -28.809 AMFE: -0.644 GC content %: 44.738
Tdicoccoides_TRIDC4BG025870.3 TRIDC4BG025870.3	High	No	1394	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -1.095 Folding energies... MFEI: -29.598 AMFE: -0.648 GC content %: 45.696
Tdicoccoides_TRIDC4BG025870.4 TRIDC4BG025870.4	High	No	1304	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -1.004 Folding energies... MFEI: -31.020 AMFE: -0.666 GC content %: 46.549
Tdicoccoides_TRIDC4BG025870.5 TRIDC4BG025870.5	Low	No	1131	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -1.011 Folding energies... MFEI: -31.070 AMFE: -0.653 GC content %: 47.569
Tdicoccoides_TRIDC4BG025870.6 TRIDC4BG025870.6	High	No	1208	OG0006644		Get ORF Coding potential... Type: noncoding Potential: -1.080 Folding energies... MFEI: -32.268 AMFE: -0.652 GC content %: 49.503

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_TRIDC4BG025870.2	SwissProt	2021-04-01	O04658	2.03e-8
Tdicoccoides_TRIDC4BG025870.5	SwissProt	2021-04-01	O04658	2.4e-8
Tdicoccoides_TRIDC4BG025870.1	RepBase (RepeatMasker)	2014-01-31	DNA/MULE-MuDR

Gene models

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