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_AET7Gv20473800 [ AET7Gv20473800]	7D	140099208	140102318	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_AET7Gv20473800.10 AET7Gv20473800.10	High	No	275	OG0080382		Get ORF Coding potential... Type: noncoding Potential: -0.896 Folding energies... MFEI: -30.836 AMFE: -0.428 GC content %: 72.000
Atauschii_AET7Gv20473800.2 AET7Gv20473800.2	High	No	1127	OG0000625		Get ORF Coding potential... Type: noncoding Potential: -0.672 Folding energies... MFEI: -32.023 AMFE: -0.633 GC content %: 50.577
Atauschii_AET7Gv20473800.3 AET7Gv20473800.3	High	No	544	OG0000625		Get ORF Coding potential... Type: noncoding Potential: -1.313 Folding energies... MFEI: -27.739 AMFE: -0.626 GC content %: 44.301
Atauschii_AET7Gv20473800.4 AET7Gv20473800.4	High	No	815	OG0000625		Get ORF Coding potential... Type: noncoding Potential: -0.529 Folding energies... MFEI: -31.951 AMFE: -0.645 GC content %: 49.571
Atauschii_AET7Gv20473800.7 AET7Gv20473800.7	High	No	1074	OG0000625		Get ORF Coding potential... Type: noncoding Potential: -0.754 Folding energies... MFEI: -32.775 AMFE: -0.621 GC content %: 52.793
Atauschii_AET7Gv20473800.8 AET7Gv20473800.8	Low	No	500	OG0080383		Get ORF Coding potential... Type: noncoding Potential: -0.846 Folding energies... MFEI: -30.600 AMFE: -0.619 GC content %: 49.400

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_AET7Gv20473800.8	RepBase (RepeatMasker)	2014-01-31	LINE/L1

Gene models

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