Zmays Zm00001d021335

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_Zm00001d021335
[ Zm00001d021335]
7 149129974 149134091 v4 Zea mays (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

Zmays_Zm00001d021335_T004
Zm00001d021335_T004
Low No 2851 [1]
Coding potential...
Type: noncoding Potential: -0.690
Folding energies...
MFEI: -29.162 AMFE: -0.679
GC content
%: 42.967
Zmays_Zm00001d021335_T005
Zm00001d021335_T005
Low No 3549 [2]
Coding potential...
Type: noncoding Potential: -1.040
Folding energies...
MFEI: -28.397 AMFE: -0.699
GC content
%: 40.631


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_Zm00001d021335_T004  SwissProt 2021-04-01 O94285 4.9e-5
Zmays_Zm00001d021335_T005  SwissProt 2021-04-01 Q9D2C6 2.95e-8
Zmays_Zm00001d021335_T004  RepBase (RepeatMasker) 0000-00-00 LINE/L1
Zmays_Zm00001d021335_T005  RepBase (RepeatMasker) 0000-00-00 LINE/L1


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).

Zmays_Zm00001d021335.png