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

>Osa10LNT0079800.2

AAACAAAAGGTAGCAATCCATCAATTCCACAAAAGGACGGAGAAGGTTAATACATCCGTCAAATGGTTTACCACAGACGATGAGTTTAAACCGTGTCCAATTTCTCTTTCGCTGTATCCATACAGATTAAACGGTGGTTTTTGGATGATTAATGTCTACTCTACATCACATAACACAAGTGTCCAGTACAAATCCAAAAAATAAACCCCACTAACTTAAGCTAGCATATAATACACCTGAGCACATCTTCTCCGGGGAAGTCTTTACTCCAATCCTATCCTCTTTTGCCTCCATCGAGCTAACCAGTTATGTACAAAACGAGAATTATCCCAACAACAGCGCAGCAAAGCCTTTTTCTCAGCCAAGGTTTCGCCCTCTTGAGGAAGCACTTCTGTAGTTAGTCCTAGGACCCTTTTCGCCTGGAACTTTGGAAACTATAAGGGAACTCTGCAGACCCTCCAGTAACCGTGAGGTTGGTTGAATTCGGCGGTTCGACCTTCTGGGTTCAGTAGAATCAGCACTCTTCCCTGGAATTTCAGATGTTTTGTTTGTGGTCCTGTTCGAATTATCCATAGAAGGAACAAGTTTCCTTTTAGCTCGATCAGTAGTGGTTAAATTCTTCCTGGAAGTAGGAGCAGCAGATGCAGCTTGGATGTGTGGTTCAGAAACAGAAGAATCTTCAGATCTAAGGCCAACGCCATGGACAGAACTATTCTTTTCTACAGAGAGGTTCATGTTGTTGGAAGAACCTATTGTACTTCCTATAAATGTATGACTACTTTCGAAAACACCAGTGCTTGGGGCAGACATGGATAAAGGTCCCTTGCCAGGAATGATGTTAGTTGCACCATCCTGAGACTTTGTAGATTTAGGTACTCTCGATCTCATCTCCCCTATCCTCTTTCCTTTCTGGTCAACTTTAGAAGTACCTTCCCGTGGTCTTGGCACATTTGGCACCAAATGTTTCACAGGTCTGGTAGATGCATTACCCTCAGAAATTTTATCAGCTTGATCTGCATCATAGTGTTTGCTTACTTCCATAAACTTTTTCTTCTTTCCAGGTTTTGGAACACCAACTACCCGTGATCCTTCTTTCCGAAGTCCAGGTCGCTTGAAAGCAACACCATCAGTTTTACTCTCAACTACCCTCTTTCCGATGTTGAAAACCATGTCCCTATCAGATAAAGCCAATGGCTTTGGCTCCTCTGGTTTTGCTGCAGCATTTGTGCTCGTATCCATAGAAGGGCCTGCTGCTGCTCCACCAATAGGTACATGATCATTACCTTTTGTTCTTTGCCGTTTCTCATGAGGAGAATCACCCTTATTACAATCAACCGTCTTCCCTCGGGACCACTCTATCCACTGCCCATCGTTCCAAACAAGTGATGGGCGAAGATTCCAAGCATCAACAACTAAGGAATCACTGGTTCCTGCTGAAAATTGTACGGTAAGCTTTGTTTCATCACCATCACGGTTGCGAGAAATAATTCCCTCTCGCCAACTATCTTCAATCAATACGTCCACATGATCACCAATAGCCCAAGAGTAATTTCCTGATGTGTCCCTACGGCGCTTCCTAGTTCCTTTAAATCTAGAAACAGTTGCAGGATGAGCAAGGCGGATTTGAGGTGCCTTCTCCCCTTCCTGTCTCAATGGCACCCATTCTTTGCGAAGACCAGTTTCTTCAGTGTGAGAGTCGTAGCTGATACATGCACTATCATTGTTTATATCAAGAACTTTGGCAGAAAACCAAGCTACTCCAGACTCACCCTTGTGAACTAAAACCTCAACAGCAGATCCCTTTTCAATGCCATTCCAGATTATGTTCGGTGCTGCATCATTTCTGTTCCCATTGACTGGAGCAATGGTGGGAACATCTTCAGCCACGTTCCCTGAATGCACTACATCTAGCTGCAACCCTTTGCCACTAGAAGATGGCTCTAAGTTCTGTATTGCATGGTCATGTTTAGCTTTGCCACCACGCTTCCTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.952249
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0079800.2 10 22024256 G A
Osa10LNT0079800.2 10 22026223 C G
Osa10LNT0079800.2 10 22029247 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
Osa10LNT0079800.2 osa-miR6253 Translation 5.0 7.213 1 22
Osa10LNT0079800.2 osa-miR159a.1 Translation 4.0 15.555 1 21
Osa10LNT0079800.2 osa-miR159b Translation 4.0 15.555 1 21
Osa10LNT0079800.2 osa-miR443 Cleavage 4.5 13.285 1 22
Osa10LNT0079800.2 osa-miR395v Cleavage 5.0 22.327 1 21
Osa10LNT0079800.2 osa-miR1851 Cleavage 5.0 10.938 1 21
Osa10LNT0079800.2 osa-miR2093-5p Translation 4.0 13.142 1 20
Osa10LNT0079800.2 osa-miR2100-3p Cleavage 5.0 17.159 1 22
Osa10LNT0079800.2 osa-miR2122 Translation 4.5 20.138 1 22
Osa10LNT0079800.2 osa-miR2879 Cleavage 4.0 19.224 1 24
Osa10LNT0079800.2 osa-miR5494 Cleavage 3.5 15.152 1 21
Osa10LNT0079800.2 osa-miR5511 Cleavage 4.0 17.877 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0079800.2 10 nan Physiological trait Sterility RZ811 RG561
Osa10LNT0079800.2 10 nan Morphological trait Seed RZ811 RG561
Osa10LNT0079800.2 10 qRf-10 Physiological trait Sterility RZ811 RG561
Osa10LNT0079800.2 10 Rf1 Physiological trait Sterility nan nan
Osa10LNT0079800.2 10 nan Morphological trait Panicle/flower RM171 RM333
Osa10LNT0079800.2 10 Qbph10 Resistance or Tolerance Insect resistance RM484 RM496
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