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

>Osa05LNT0300800.1

GGAATTTAATGGTTTTATAAAAATAATCTGATATATACAACAGTGTGAGGATGGCATCCAAGCAAGTGATGTCTAAATGCTACAAACAGGTTGGTGCAGTGGTGCAAAAGCTGCTGCAGCTTAAAACTTGAAGCACTTGATGTTTCACACATTGGCTCTAGAAACTCTCTGGCTTGTCATCGTCTACTGAGATTGAAGAGTAGAATCACAACATTGAAGTATTACGCTTCGAAGGAAGTGAAAAAAAAATGTTTGCTCAAAGTTTTTCCATATCAATGCATACCCAGTATACTTACTTACCAACAAAGATTGTTTATTCTTTGAGTTCGCATTGACGAACAGATCCTTATGAAATAATGAATAAATCGTACGGGCAAAATATATAAAAGATACAGAAAAATGTTCGTTAGAAGTTTCATGAAAAACAATTATTGATACGTTCATATTACACACCATAATTTTATAATTTCATATAGGCTCCTAAAACACAATTTAGATATCAAATTAATAAAACAGAGAGAACTTGCAAAAAACAAGTAGAGTTTTCATCAAAGAAAATAATGAGGTCAGTGATTAGGAATAGAGGAGAAAACCATGCTGAAAATGTGAATGTAAGTTGTGATCACGACCAACCTTGAGTAGGCTGAGCTGTTACAGACCCATGGAAGATGTGCTTCAACAGGGAAGACCATGTAGTTATGTGTTTTCTGTTCAATTTACTCTTGTCAACAAGATCAGTTTTGTTCCCAAGCAGAACAATGATAGAAATCCCTTGCCCCTCTCAGTTCTAATTTTCCCTATCATTTTGAAGTGTCCAGGAAATACTGCCCGCTTTCTTCTTGATCACCTTTTTCCCTCTAATGGACCAAAGCTGTAAATTGCCCTTGTTCTAGAAAGAATATATATAGAGGTGCTGCACAAAGAACACCCAGGATGGCTGTAGCCTTGACCAGCTGCGCGATTCCCTCCTTGCCTGCATCCGCCGCACACACCGTTCCGTCATGGTCCACGGGTATACCTCCTCATTACAGCCCCGCCCTTGGATATCGAGCTCACACCGTTCGCGGTCATCCTCCCTGGTGCACTGTACATTGTAAATAGAGTTCGGTTCTTCAGTAATTTATCTCCAAGATTTCAGTCTCCATGTATTTCCCAATATTGTAGCAGCAGAAACACTCTGTAATAATGCCCATCTTTTATATATGCTACTCCTTTTCTTACTGAAGCCTCAAACTTCAAACTTCGAGTGATTTTAACTCATCACTGACACTTGATGCAAAGGATAAAAAACAATGCTATAAAAATCAAATGATATAATTCATAATTTAGATGGAAATTTGCGAAGTAACTGCAACCGATGTACTCGAAAGGACTCAAAACTAACATAGGAAGGAAATACCTGATGAAATTTCCTCGTTGTTCATAGGTAGAATGAATGTGGCTTACCTGAGGGAAGCAATAGAGAGCCGAGGTGCTTGCTGTGAGAACTGACCTCCAATCAAATGCTCTTGAAGACGACCTCGCTGACGTTGCTGCCGATGGCGCCATGGCGGAGGGCGGAGTCTTCTCCCTGGCGGCGGTGGCGGAGAAAGCGAAGAAGAACGGCGGTGTGGAACCGGCGCTTCGTGGTCTTGAGGAGGAGAGGCGACCGGCGATGCAGCTCCTTTTCTTCAGCGCGGCAGCGAGGGAGGAGATCGGTGCGAGGAGGCGAGGGAGGAGATCGGCGCGCGGAGGATGCAGACCGACGGCGCGGAGGCAAGGGAAGAGATCGGCGAGGGCGGCGCGGGATGGGGGTGCAACGGCGGCGCGGGATGGCGGAGGCGGCGGAGCGAATCGGCGAGGGGCGGCGGTGCGGTGTTGGGAGAGTAGGGTTGCGTGATGTGCGGCGAAACGGA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.858641
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0300800.1 5 10801609 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0300800.1 osa-miR812t Translation 4.5 19.639 1 24
Osa05LNT0300800.1 osa-miR812u Translation 4.5 19.639 1 24
Osa05LNT0300800.1 osa-miR6253 Cleavage 4.0 16.42 1 22
Osa05LNT0300800.1 osa-miR6253 Translation 4.5 18.67 1 22
Osa05LNT0300800.1 osa-miR160f-3p Cleavage 5.0 18.148 1 21
Osa05LNT0300800.1 osa-miR171e-5p Cleavage 5.0 17.673 1 21
Osa05LNT0300800.1 osa-miR1847.1 Cleavage 4.5 13.669 1 21
Osa05LNT0300800.1 osa-miR2096-5p Translation 5.0 18.881 1 21
Osa05LNT0300800.1 osa-miR2097-5p Translation 4.0 11.348 1 22
Osa05LNT0300800.1 osa-miR2877 Cleavage 4.0 19.919 1 24
Osa05LNT0300800.1 osa-miR812n-3p Translation 4.5 19.639 1 24
Osa05LNT0300800.1 osa-miR5075 Translation 4.0 20.988 1 21
Osa05LNT0300800.1 osa-miR2093-5p Translation 4.0 9.167 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0300800.1 5 QKw5 Morphological trait Seed RG182 RG13
Osa05LNT0300800.1 5 qLTG-5 Resistance or Tolerance Cold tolerance RM249 RG13
Osa05LNT0300800.1 5 yl(t) Morphological trait Shoot/Seedling nan nan
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