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_AET2Gv20126000 [ AET2Gv20126000]	2D	29148641	29151454	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_AET2Gv20126000.1 AET2Gv20126000.1	High	No	1078	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.498 Folding energies... MFEI: -31.030 AMFE: -0.599 GC content %: 51.763
Atauschii_AET2Gv20126000.10 AET2Gv20126000.10	High	No	1134	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.859 Folding energies... MFEI: -30.714 AMFE: -0.622 GC content %: 49.383
Atauschii_AET2Gv20126000.11 AET2Gv20126000.11	High	No	1076	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.852 Folding energies... MFEI: -31.515 AMFE: -0.631 GC content %: 49.907
Atauschii_AET2Gv20126000.12 AET2Gv20126000.12	High	No	1118	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.878 Folding energies... MFEI: -29.946 AMFE: -0.602 GC content %: 49.732
Atauschii_AET2Gv20126000.13 AET2Gv20126000.13	Low	No	1049	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -1.015 Folding energies... MFEI: -28.770 AMFE: -0.678 GC content %: 42.421
Atauschii_AET2Gv20126000.14 AET2Gv20126000.14	Low	No	669	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -1.057 Folding energies... MFEI: -26.099 AMFE: -0.630 GC content %: 41.405
Atauschii_AET2Gv20126000.2 AET2Gv20126000.2	High	No	1261	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.515 Folding energies... MFEI: -31.055 AMFE: -0.629 GC content %: 49.405
Atauschii_AET2Gv20126000.3 AET2Gv20126000.3	High	No	944	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.481 Folding energies... MFEI: -32.119 AMFE: -0.600 GC content %: 53.496
Atauschii_AET2Gv20126000.4 AET2Gv20126000.4	High	No	1277	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.565 Folding energies... MFEI: -30.446 AMFE: -0.622 GC content %: 48.943
Atauschii_AET2Gv20126000.5 AET2Gv20126000.5	High	No	1167	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.554 Folding energies... MFEI: -30.171 AMFE: -0.604 GC content %: 49.957
Atauschii_AET2Gv20126000.6 AET2Gv20126000.6	High	No	1184	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.555 Folding energies... MFEI: -30.659 AMFE: -0.614 GC content %: 49.916
Atauschii_AET2Gv20126000.7 AET2Gv20126000.7	High	No	1031	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.727 Folding energies... MFEI: -30.563 AMFE: -0.589 GC content %: 51.891
Atauschii_AET2Gv20126000.9 AET2Gv20126000.9	High	No	1124	OG0000681		Get ORF Coding potential... Type: noncoding Potential: -0.858 Folding energies... MFEI: -30.418 AMFE: -0.616 GC content %: 49.377

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_AET2Gv20126000.13	RepBase (RepeatMasker)	2014-01-31	LINE/CR1
Atauschii_AET2Gv20126000.14	RepBase (RepeatMasker)	2014-01-31	LINE/CR1

Gene models

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