Spurpurea SapurV1A.0740s0080

From GreeNC


Gene information
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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

Spurpurea_SapurV1A.0740s0080
[ SapurV1A.0740s0080]
chr05 12986526 12987762 v1 Salix purpurea (Phytozome 13)
Coding?
Yes


Transcript features
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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

Spurpurea_SapurV1A.0740s0080.2
SapurV1A.0740s0080.2
Low No 942 OG0014445
Coding potential...
Type: noncoding Potential: -0.943
Folding energies...
MFEI: -26.369 AMFE: -0.599
GC content
%: 44.055
Spurpurea_SapurV1A.0740s0080.3
SapurV1A.0740s0080.3
Low No 1033 OG0014445
Coding potential...
Type: noncoding Potential: -1.033
Folding energies...
MFEI: -25.586 AMFE: -0.587
GC content
%: 43.562
Spurpurea_SapurV1A.0740s0080.4
SapurV1A.0740s0080.4
High No 1146 OG0014445
Coding potential...
Type: noncoding Potential: -1.052
Folding energies...
MFEI: -25.061 AMFE: -0.590
GC content
%: 42.496
Spurpurea_SapurV1A.0740s0080.5
SapurV1A.0740s0080.5
Low No 1019 OG0014445
Coding potential...
Type: noncoding Potential: -1.223
Folding energies...
MFEI: -26.703 AMFE: -0.616
GC content
%: 43.376


Matches to external databases
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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
Spurpurea_SapurV1A.0740s0080.2  SwissProt 2021-04-01 Q9FDX9 8.12e-9
Spurpurea_SapurV1A.0740s0080.3  SwissProt 2021-04-01 Q9FDX9 1.14e-10
Spurpurea_SapurV1A.0740s0080.5  SwissProt 2021-04-01 Q9FDX9 5.98e-10


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

Spurpurea_SapurV1A.0740s0080.png