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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Summary
Sequence
Coding Potentia
Genome Browser
Expression
Variation
Sequence

>Osa04LNT0245800.1

CCAGAATGTACAACAATAATCCCCCTTTCAAGGGGAGAAGAGCAGATAAGCATCGCCTTCTTCTGGACTGTGTTGCCTTCTAACTTGGTATGCACACACGCAGTCCCTCTATTCGAAGGCTAATATAATCAAGAGCAGAAACCTACTGCAGCCTATCTTAAAGTATGCTTGTGGCTGAGCACCAACTACTAAAATGGGTCTGCCAATTTACAAGATCTACTGCCTACAATTGTATTCTCTGTGATTTGCCGGTTAACGAGAACAGAGCATGCACCAGGGAAAATCTCTGCAGTTACCAAAGCAGGACTTCAGTTGAAGGTGGACAGCAGATCCAACTCCTCCATCCAATGCAATTGTTGTATTGTATTTGTCATTGCTATTTCTCTAAGAGACTAATAGTCTGCAGAGCCATCAATTAAGTGCCCCATGTATCAGTCATACTAACGTCAGCGTCAGAACTGAGCCAGTAATCAGCAGCAATATCATCTGATGGTACAATTTTCACAATGCCAGGCACTGGATCGTCTCTTTTGGATGGCTCTGATGTATGCTCTCTTACACCATTGCTCTCCCCAATTTCCGATGCCTGAACATAATCCATCTGCTGCGGAGCTTGAGAACTTCCACTAGTGACCGCAGCATCCAAATTGTCTGCCATCTGCTGGTCTGCGTTGAATGTCTCCTGATGGTTACTTATTAGAAAGCAATCAACAGGACCCATTGCACTTCTAAATACAATCTGGTAGTGCTTCTCTTGATTATCCAGATCCTTATAAATGTCCATATCCAAATTAGGGTCTGGAACTTCAATATAGGTTCCTCGAGGAGCGTTTACTGCAATAAGAGTGGATCCCTGAAAGCGAGGAATCGCATTGATATCTTCCTTCGAAACATACAACAACTTTCTTCTGTCCTCATCGACTCTAAGGGCATTCAGTTTCTCTTGTGCTTCCATTATTTCATCATCCAACCTGGACTCTTCATCATAAAGAGACTCAATTTCTTCCTTCAATGCTGAGATTTGTCGTTCTCTCTCCTTAGGCTTTGACATATCAAAACCCTTCCAACGAATCATATTCTTCAGTGTCTTTTCGATTAAATCTACACCTTCTAAAACATTTGTTATATCATATATCCTCCTCTTTTGCACCTCCAATGTCTCAGCCGCTTTATTTAAATCAAGGGTTCCATCTTCTGCTCCTTCAAGAAGGTTGATGAACTTCTTTGTAAGAAGACCTAGCGAGCTGTCATAGCGACAGTTGTTTGGTGAAAATAAAGAAGGCCCAGCATCTCCTTCATTTGATCGAAGACTACCTTTTTTAAAACCTTTTGGTTTTCTAGGCCGTTTGATGCCTTTTACTGCCCCAGTTGTACATTCTTTATCAGGCCCTTGCACAGTCTCTCCTTTGGCGACTTCAGACTGTACAGTTTCTCTTTCATTTTTCTCCTCATTGTCCGCCGCGTTGGCCATCGGATTCCCCGTCGCGGGCGCAGCCACCTCTTCGGTAGCTGTAGCCATAGTCGTAGCCGGAGGCGGCGCCGCCACGGCGACCGCAGGCTGCTGCGGAGGCGGGCGAGCAGGCGTGACCGCGGGGGCGGCGGGAGGAGGAGGAGCAGTAGTAGTTGACGGCGGGGGC

Coding Potentia
Explanation CPC Score
noncoding -1.13194
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0245800.1 4 708816 T C
Osa04LNT0245800.1 4 707018 A T
Osa04LNT0245800.1 4 707113 G A
Osa04LNT0245800.1 4 707216 C T
Osa04LNT0245800.1 4 707459 T C
Osa04LNT0245800.1 4 707603 T C
Osa04LNT0245800.1 4 707961 G A
Osa04LNT0245800.1 4 710656 A C
Osa04LNT0245800.1 4 710468 A C
Osa04LNT0245800.1 4 711028 A C
Osa04LNT0245800.1 4 710741 A G
Osa04LNT0245800.1 4 708399 A C
Osa04LNT0245800.1 4 710129 T G
Osa04LNT0245800.1 4 709441 G A
Osa04LNT0245800.1 4 708297 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0245800.1 osa-miR818f Cleavage 5.0 19.615 1 21
Osa04LNT0245800.1 osa-miR396a-5p Cleavage 5.0 17.679 1 21
Osa04LNT0245800.1 osa-miR396b-5p Cleavage 5.0 17.679 1 21
Osa04LNT0245800.1 osa-miR396c-5p Cleavage 5.0 17.679 1 21
Osa04LNT0245800.1 osa-miR171c-5p Cleavage 4.5 14.426 1 21
Osa04LNT0245800.1 osa-miR1428a-5p Cleavage 4.5 8.855 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0245800.1 4 nan Resistance or Tolerance Other soil stress tolerance C946 R1854
Osa04LNT0245800.1 4 qOVA-4 Resistance or Tolerance Insect resistance R1854 C946
Osa04LNT0245800.1 4 qCTS4-1 Resistance or Tolerance Cold tolerance RM335 RM261
Osa04LNT0245800.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
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