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_AET2Gv20469000 [ AET2Gv20469000]	2D	195713111	195714505	v4	Aegilops tauschii (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
Atauschii_AET2Gv20469000.1 AET2Gv20469000.1	Low	No	506	OG0024655		Get ORF Coding potential... Type: noncoding Potential: -0.881 Folding energies... MFEI: -30.375 AMFE: -0.728 GC content %: 41.700
Atauschii_AET2Gv20469000.3 AET2Gv20469000.3	Low	No	722	OG0024655		Get ORF Coding potential... Type: noncoding Potential: -0.875 Folding energies... MFEI: -29.765 AMFE: -0.676 GC content %: 44.044

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_AET2Gv20469000.1	SwissProt	2021-04-01	Q56YT7	7.45e-4
Atauschii_AET2Gv20469000.1	RepBase (RepeatMasker)	2014-01-31	LTR/Pao
Atauschii_AET2Gv20469000.3	RepBase (RepeatMasker)	2014-01-31	LTR/Pao

Gene models

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