Zmays Zm00001d023351

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

Zmays_Zm00001d023351
[ Zm00001d023351]
10 3949445 3952239 v4 Zea mays (Phytozome 13)
Coding?
No


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

Zmays_Zm00001d023351_T001
Zm00001d023351_T001
Low No 710 [1]
Coding potential...
Type: noncoding Potential: -1.302
Folding energies...
MFEI: -24.986 AMFE: -0.616
GC content
%: 40.563
Zmays_Zm00001d023351_T002
Zm00001d023351_T002
Low No 1457 [2]
Coding potential...
Type: noncoding Potential: -1.104
Folding energies...
MFEI: -24.262 AMFE: -0.664
GC content
%: 36.513


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
Zmays_Zm00001d023351_T001  SwissProt 2021-04-01 Q03387 2.25e-9
Zmays_Zm00001d023351_T002  SwissProt 2021-04-01 Q84PB3 4.99e-9


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).

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