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_AET1Gv20756300 [ AET1Gv20756300]	1D	419218880	419231800	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_AET1Gv20756300.36 AET1Gv20756300.36	Low	Yes	3233	OG0069037		Get ORF Coding potential... Type: noncoding Potential: -0.760 Folding energies... MFEI: -30.235 AMFE: -0.706 GC content %: 42.839
Atauschii_AET1Gv20756300.37 AET1Gv20756300.37	Low	No	750	OG0069038		Get ORF Coding potential... Type: noncoding Potential: -1.228 Folding energies... MFEI: -31.760 AMFE: -0.681 GC content %: 46.667

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_AET1Gv20756300.36	SwissProt	2021-04-01	Q8RX28	3.42e-5
Atauschii_AET1Gv20756300.36	Rfam	14.6	MIR1122	2.4e-18
Atauschii_AET1Gv20756300.36	RepBase (RepeatMasker)	2014-01-31	DNA; DNA/PIF-Harbinger; DNA/TcMar-Stowaway
Atauschii_AET1Gv20756300.37	RepBase (RepeatMasker)	2014-01-31	DNA/TcMar-Stowaway

Gene models

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