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_AET4Gv20813400 [ AET4Gv20813400]	4D	506703252	506711976	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_AET4Gv20813400.1 AET4Gv20813400.1	High	No	1038	OG0016411		Get ORF Coding potential... Type: noncoding Potential: -0.331 Folding energies... MFEI: -30.674 AMFE: -0.513 GC content %: 59.827
Atauschii_AET4Gv20813400.3 AET4Gv20813400.3	Low	No	1101	OG0075609		Get ORF Coding potential... Type: noncoding Potential: -0.022 Folding energies... MFEI: -27.584 AMFE: -0.493 GC content %: 55.949
Atauschii_AET4Gv20813400.5 AET4Gv20813400.5	High	No	932	OG0016411		Get ORF Coding potential... Type: noncoding Potential: -0.809 Folding energies... MFEI: -32.039 AMFE: -0.591 GC content %: 54.185
Atauschii_AET4Gv20813400.6 AET4Gv20813400.6	Low	No	641	OG0015962		Get ORF Coding potential... Type: noncoding Potential: -0.562 Folding energies... MFEI: -24.727 AMFE: -0.634 GC content %: 39.002
Atauschii_AET4Gv20813400.7 AET4Gv20813400.7	High	No	480	OG0016411		Get ORF Coding potential... Type: noncoding Potential: -0.887 Folding energies... MFEI: -27.750 AMFE: -0.582 GC content %: 47.708

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_AET4Gv20813400.6	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm
Atauschii_AET4Gv20813400.3	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm

Gene models

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