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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa04LNT0288600.1

AGAGAAGTCCGATCATGCTCATTCAGAAATTAGGTGCCCATGATTTACAGACCTGGCCAACATTGATGTTCAGCACAAACAAACTAGCAGTGTAAACTGTATAGGCAGTACAAGATAATCTCCTTTCACTAATACAGAAATATCCTTTTGACAGTGACCTATTCGATGAGGTTCGTAAAACAACTCATCTAGTTTGGCTAACATAGACAGTGCGGTTTCTTGCTGGTAGGCAACCAAAAGAGTGCAGAGGGCATCGTGTCGTCAGTTTGCCAGGTTCATAAAAGACCAGCTTGAAGGGCATAACTCCCGCACCGTGTTCCCATCCTCATCCTTGATTTGAACATCAGCATGATGCTTGACAAGCAACTCAGCAATATCTTCTCGCTCACAGAGGACAGCATAGTGAAGCGCTGTTTGTCCTTCATTGTCCTGAGCATTCACGTCAGCATTTGCATTGACAAGAATCTCAACAGAATTTAGATGGCCACGGTCGACAGCCCAATGCAGTGGAGTTCTGCCTTCACTATCTCTCATGTTGACTTCTACACCAGCAGCCAGATGCTTCGCTATGTCATCAATTGCTCCTTCCCTTGCTGAAACATGGATATCGCCAAGTTCAGAGTCATTTCCCTGATCTTCCTCCTCATACATTAAACTGCTAAATACAGGTCCCATTGGTCCCTTCGAACTTGAAGCAGATACTGTGGTATCTTCATCTTTCCTTTTCGTGCTCGAACCCATGCTCCAGTTAGGGAATAGCTCATCCACAACTGTGATGTACTTCTGCATAGCTTCTTCTGTCGGCATAGCACCCAATTTATGCCAAGCATTCCTTGGATATTGACACCATATGAAAATTAGGATACTTGTAAACTAGATTAAGTCTTTAAAATTGACAGAGATAGACAGCGCAAAAGACAAACAGTATGATGTTAATAAAAGTTAGCTGCAAACAGTAGATATCTTAATTCAGACTCCAGTGCCAAATTCAAAAGGGTAAATTCAAAACCACCAAAGGAAGTCAGGAAACAATAAATCAAACAACATAATGCAAAAGTAAGTTGAATTGCAGCATCTGACTGAGGAATGCTACTATTTGTGAGATCATCGAGCTACCAGGAGATTTCACTTCCAATGAACCAAACCTGTAAACCTAGAGGCAATAACAATGAGTTAAGTTTCTAACAAGAATCATAGCTACAAGATTAACACACAGGAATTTATGAGTCTCCTCTGGTCAGTGCAAAGCACAAAAAACCTACCACCAGATTTCGTGATCAGCAATTCTAGCAGTAACTGAACCTAAACTTAGATAACGATAAATTTCGATCCATTTCCCTAAACCCTCGAACTGAAACAGTGGGGGTTAAGCGGAGCCCGACTCTAACAGATGCTTGAACTAAATCCAGAAGAGAAAAAAGATCAGGGAGGCAGGGGGATCGAATCTACCACTTGGCGCGGGCCTTGAGCTTGAGGGCGGACGGCTGCGGCGCGGTGCAGGGCCCCTCGGTGGCGATCTTGTAGAGCCCATAGAGCTGAAGCTGGGCTTGCTCGGGGACGCTCGTGCCAGACGCAGCGGAGGCGGCGACGAACGCGGAGGCGGCGCTGAACTCCTCGTCGAGCTCCGTGCTCTCCACGCCCTCCCAGTCGCTGTCGCTGTCGCTGCCGCTGCCGTCGCTGGTGTCCCCATGGCCGCCGTCGAGGGAGGCCGGAGGTGGGGCCGGGGCGGCGGGGGTGTCCGCGGCGGAGGGGGAGGTCGGCGTGGAGCGGGTGATTCGGAGGTTGTCCTCCTTGAAGGCGATGACCGTGGAGATGAGCTTGGCGACGAGGAAGGCGAAGAGGAGGCCGATTACCGCCGCCTGGGCAAGCTCCTGCCAGTCGCCGCCCATGGCCGACGCCGACGCCGACGAGTCGCCGGGGCGAGATGGGATGCGCCGCGGATGGAGGCGGCGGCGGAGAAGAGAAGAGAGAAGAGGACTTGGGTGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.500124
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0288600.1 4 34812233 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0288600.1 osa-miR319a-5p Cleavage 4.5 20.905 1 21
Osa04LNT0288600.1 osa-miR1879 Translation 4.0 17.566 1 24
Osa04LNT0288600.1 osa-miR2097-3p Cleavage 4.5 21.763 1 22
Osa04LNT0288600.1 osa-miR5075 Cleavage 5.0 22.536 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0288600.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0288600.1 4 Sh(t) Morphological trait Panicle/flower nan nan
Osa04LNT0288600.1 4 nan Resistance or Tolerance Drought tolerance RG143 RG620
Osa04LNT0288600.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0288600.1 4 Sh3 Morphological trait Panicle/flower nan nan
Osa04LNT0288600.1 4 iSh3(t) Morphological trait Panicle/flower nan nan
Osa04LNT0288600.1 4 Sh3-gla Morphological trait Panicle/flower nan nan
Osa04LNT0288600.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus