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
Kfedtschenkoi_Kaladp0008s0921 [ Kaladp0008s0921]	Scaffold_8	7046592	7048233	v1.1	Kalanchoe fedtschenkoi (Phytozome 13)	Coding? No

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
Kfedtschenkoi_Kaladp0008s0921.1 Kaladp0008s0921.1	Low	Yes	859	OG0050504		Get ORF Coding potential... Type: noncoding Potential: -1.223 Folding energies... MFEI: -26.915 AMFE: -0.680 GC content %: 39.581
Kfedtschenkoi_Kaladp0008s0921.2 Kaladp0008s0921.2	Low	Yes	833	OG0050504		Get ORF Coding potential... Type: noncoding Potential: -1.222 Folding energies... MFEI: -27.311 AMFE: -0.685 GC content %: 39.856

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
Kfedtschenkoi_Kaladp0008s0921.1	Rfam	14.6	mir-172	3.6e-16
Kfedtschenkoi_Kaladp0008s0921.2	Rfam	14.6	mir-172	3.5e-16

Gene models

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