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
Atauschii_AET2Gv20167000 [ AET2Gv20167000]	2D	38996505	38996846	v4	Aegilops tauschii (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
Atauschii_AET2Gv20167000.1 AET2Gv20167000.1	Low	No	234	OG0006808		Get ORF Coding potential... Type: noncoding Potential: -0.881 Folding energies... MFEI: -32.821 AMFE: -0.577 GC content %: 56.838
Atauschii_AET2Gv20167000.2 AET2Gv20167000.2	Low	No	291	OG0004646		Get ORF Coding potential... Type: noncoding Potential: -0.590 Folding energies... MFEI: -34.605 AMFE: -0.610 GC content %: 56.701

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
Atauschii_AET2Gv20167000.2	RepBase (RepeatMasker)	2014-01-31	LTR/Copia
Atauschii_AET2Gv20167000.1	SwissProt	2021-04-01	Q9FQ03	8.84e-5
Atauschii_AET2Gv20167000.2	SwissProt	2021-04-01	Q9FQ03	3.39e-5
Atauschii_AET2Gv20167000.1	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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