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_AET7Gv20058300 [ AET7Gv20058300]	7D	12723054	12724997	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_AET7Gv20058300.3 AET7Gv20058300.3	Low	No	335	OG0025188		Get ORF Coding potential... Type: noncoding Potential: -0.599 Folding energies... MFEI: -19.731 AMFE: -0.551 GC content %: 35.821
Atauschii_AET7Gv20058300.4 AET7Gv20058300.4	Low	No	330	OG0079844		Get ORF Coding potential... Type: noncoding Potential: -0.615 Folding energies... MFEI: -22.667 AMFE: -0.580 GC content %: 39.091

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_AET7Gv20058300.4	SwissProt	2021-04-01	Q5SVZ6	5.4e-8
Atauschii_AET7Gv20058300.3	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-Tip100
Atauschii_AET7Gv20058300.4	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-Tip100

Gene models

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