Gene

Zmays GRMZM2G014979

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 Source Assembly Species Details

Zmays_GRMZM2G014979
GRMZM2G014979
3 184209613 184211341 Phytozome 6a Zea_mays
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 Sequence Details

Zmays_GRMZM2G014979_T01
GRMZM2G014979_T01
PAC:31032663
Low No 1002
Coding potential...
Type: noncoding Potential: -1.051
Folding energies...
MFEI: -25.579 AMFE: -0.595
GC content
%: 43.014
Zmays_GRMZM2G014979_T02
GRMZM2G014979_T02
PAC:31032662
Low No 1337
Coding potential...
Type: noncoding Potential: -1.081
Folding energies...
MFEI: -26.343 AMFE: -0.606
GC content
%: 43.455
Zmays_GRMZM2G014979_T03
GRMZM2G014979_T03
PAC:31032661
Low No 1717
Coding potential...
Type: noncoding Potential: -1.102
Folding energies...
MFEI: -27.967 AMFE: -0.640
GC content
%: 43.681


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_GRMZM2G014979_T03  RepBase (RepeatMasker) 2014-01-31 HARB-11_SBi
Zmays_GRMZM2G014979_T01  RepBase (RepeatMasker) 2014-01-31 HARB-13_SBi
Zmays_GRMZM2G014979_T02  RepBase (RepeatMasker) 2014-01-31 HARB-13_SBi


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).

GRMZM2G014979.png