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_TRIDC3AG052280 [ TRIDC3AG052280]	3A	607689651	607694950	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_TRIDC3AG052280.14 TRIDC3AG052280.14	Low	No	1122	OG0061778		Get ORF Coding potential... Type: noncoding Potential: -0.105 Folding energies... MFEI: -30.303 AMFE: -0.675 GC content %: 44.920
Tdicoccoides_TRIDC3AG052280.21 TRIDC3AG052280.21	Low	No	1469	OG0061778		Get ORF Coding potential... Type: noncoding Potential: -0.065 Folding energies... MFEI: -24.132 AMFE: -0.645 GC content %: 37.440
Tdicoccoides_TRIDC3AG052280.29 TRIDC3AG052280.29	High	No	540	OG0015273		Get ORF Coding potential... Type: noncoding Potential: -0.902 Folding energies... MFEI: -28.870 AMFE: -0.636 GC content %: 45.370
Tdicoccoides_TRIDC3AG052280.30 TRIDC3AG052280.30	High	No	926	OG0015273		Get ORF Coding potential... Type: noncoding Potential: -1.035 Folding energies... MFEI: -25.324 AMFE: -0.603 GC content %: 42.009
Tdicoccoides_TRIDC3AG052280.31 TRIDC3AG052280.31	High	No	502	OG0015273		Get ORF Coding potential... Type: noncoding Potential: -0.881 Folding energies... MFEI: -29.024 AMFE: -0.610 GC content %: 47.610
Tdicoccoides_TRIDC3AG052280.32 TRIDC3AG052280.32	High	No	687	OG0015273		Get ORF Coding potential... Type: noncoding Potential: -0.966 Folding energies... MFEI: -27.293 AMFE: -0.615 GC content %: 44.396

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_TRIDC3AG052280.21	SwissProt	2021-04-01	Q5QNA6	4.57e-28
Tdicoccoides_TRIDC3AG052280.14	SwissProt	2021-04-01	Q5QNA6	5.36e-28

Gene models

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