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_TRIDC5AG066860 [ TRIDC5AG066860]	5A	636812255	636814338	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_TRIDC5AG066860.1 TRIDC5AG066860.1	High	No	684	OG0021624		Get ORF Coding potential... Type: noncoding Potential: -1.119 Folding energies... MFEI: -24.810 AMFE: -0.629 GC content %: 39.474
Tdicoccoides_TRIDC5AG066860.2 TRIDC5AG066860.2	High	No	252	OG0362675		Get ORF Coding potential... Type: noncoding Potential: -1.151 Folding energies... MFEI: -25.159 AMFE: -0.561 GC content %: 44.841
Tdicoccoides_TRIDC5AG066860.3 TRIDC5AG066860.3	Low	No	294	OG0362676		Get ORF Coding potential... Type: noncoding Potential: -0.602 Folding energies... MFEI: -33.061 AMFE: -0.509 GC content %: 64.966
Tdicoccoides_TRIDC5AG066860.4 TRIDC5AG066860.4	Low	No	296	OG0362677		Get ORF Coding potential... Type: noncoding Potential: -0.949 Folding energies... MFEI: -35.068 AMFE: -0.661 GC content %: 53.041
Tdicoccoides_TRIDC5AG066860.5 TRIDC5AG066860.5	Low	No	883	OG0362678		Get ORF Coding potential... Type: noncoding Potential: -1.249 Folding energies... MFEI: -27.384 AMFE: -0.659 GC content %: 41.563

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_TRIDC5AG066860.3	SwissProt	2021-04-01	Q1D752	1.1e-10
Tdicoccoides_TRIDC5AG066860.4	SwissProt	2021-04-01	Q1D752	4.7e-8
Tdicoccoides_TRIDC5AG066860.5	RepBase (RepeatMasker)	2014-01-31	LTR/ERV1

Gene models

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