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

>Osa09LNT0448400.2

GAAAGTATGAAACTACACCAACGATGTTCAGTGTAAGAAACTGTACAAAAGAACTTTGTCTTTGGATATCCTTGACACCTTACATCCACACACGTCCAGCTTACACGTTAACTGTTGGCTAGATACAATTTAGAAAACATAAATACGTGTGCTACATGATAAACGCAGCTTATCTAGATCTGAAGCAAAATATGATCCCTACTGACAAACTCTACAATGTACGAGGTCCATGGCCTAACCTAGCACACGAAGTTAGCCTGTATATATATGCAACACCACCATACACTGCTGACTGTAGGTCAGGGCAATCATACTTTCACTCTTCAAACAAAATCTGACACTGACCACCAGGATAACCGTGGCACAGCAATCTCCTGAAGTTTGGACAGCCCTAGCTCCCTTGGACACCATGATCTTGCCGAACAAACTGACCCTTAACCCGCGGTCGCTGCTCGGCTAGTAGCTTCCTGCTCTGGTATCGCACCTTCTTCTCAAAGCACCTGTCTTTCCTCTTAAGCCGGAACTTGTTCAGTGCAGCCTCTCGTTGGCTCAGGTGGCGTAAACCATCAGGATTTTCAGGAACAACATTTGATGATTCAGTAGGGGCAATCATGTGGTTGGAAGAGCTGTCACAGACACTGCCACTGAGCGTTTTTCTGGCGCTGTCCAGCACAGTGCTGCTCCCACTTTCACCGGTGGTTGGAGAAACATGCCGCGGCTCATCTGTAGGAATTTCAATGCGGAGATGTTTCCGATTAGCACTTAGATGACTCCGAGCAGTTTGTTCCTCTACATTTTCAACCTGCTTAGTATCCGTATCTTTTGGACCATTCTGCTGCAGAGAAATTGCTTGTGTGGTTGCGTCTTGCCAGGTAGATGTTTTGCTATTCCAAATGGGAGGAGCTGATTGTGGATAGAAAAGGGATGCCACAGGTGCACCGTTCCAGAATGGCTGCCCATCAAATGTTAGTCCTCCAACAGGAACAGGAAATGGTACAACTCTAATGGGAGGTTGGTTTGTTTCCCTCTTGTCTTGAGAGGGAGTTTTGGAATCTCCATTTTTGTTTTCAAGATCTATATGTGTTGCCGAGGTGCTGCATGCCTGAGCATCACCAGCATTAATGGTAGATGATGCTGTCCTGCAGTTGTACAAGGAAAATGGAGATGAAGTTGAGTGGTTCAGTGTTCTTCGTTCATTTTTCTCCTGGCTCTCTAATCTACTGTAGTCAGATCTTCTGAGAGAAAGTTCTAACTGGTGTGCTGGAATGGAAAAGCACTTGTCATCATTTCCACGGGAATTTGCTCTCGCAACATCCATCTCCATATGTGTGTTATTCTTCTGCTGATTGTCAATAATATGAACCAGCTCCATATCCCTGGAAGCTTTCTCACAATTAATATCATTTGAACATGTCATCCTCCTCAGTGATGCATCCTCTTCCCTCCGTGGAATCAAGTTGCCATCATTAGATGCATGAATTTTAGTCCCTCCATTTTTCTCGGTGTTCTTGTGGTCAGGCTTGGAGAAATGCCTTCCCATTGGCTGCTTATATTCCAGTAAATTGTTGGTTTGCCTACTGTCAGCCTCCAGTTCTGACCTTGTACATGAACTCTTACTGTTGTCATATGTACTCCATTTTGCAATACCCAAGAGGACCGAACTGTGACATTTCGCTGACAAGAAAATACTATTCTCACTCAAAACACAGTTCCATTACCCACCATTTTTATCGTGTGGGTAATGAAACTGCTTTTGGCCAAAACATCAGGTGATGGAAGTGTTACAGTTCGGTCATAGCTGGGCAATGCAAAATGATACAGCACAAATCCCATACGTGGCTAATGATTGAAATTTTGTACGCAAGACTATCTTTGGGCACACATGAGCAGGAAGAAGAAAGAACAGGTAGACAACGTCATGTTAACTGATTCTAAAACTTACTTGAGCATCACTTTCTTGTTCACTGCATTCCATGTTCTTGTGGACAACATTTTCAGTCACATGTTCAGCTTTCGTCACTCCGGTCTTCTGCTCATGCCTTTCTGTAAGATTATCTTCTTGTTGAGTATGCTGCACATCAAGAACACCGCTGGACAGTTGTTTTCTCCAAACATGCTGCCATAAGTTCCTTAATTCATTCTTCCGTATTGGCTTAACAAGGAAATCTGCAGCACCCTTTAGCATGCATTTGAAAACCATGCTAACGGAATCATTTGAAGACATCATTATGACGGGGATATTCTTGCATGCGTCATGTTCCATGATCGTGGAGAGCAGCAGGAACCCAGACATCAAGGGAAGTTCAACTTCAGTTAAAACAAGGTCTATATTGAAAGATTTTTCCTTTAGTATGTCCCACGCTTTCACACCATCAGAGGCTGCGGCAACTCGATACCCGCACTTGCGGAGCAGCGCGCAGATGATGTGGCGCGTGGAGTCGTCGCCCTCAGCGAGCAGCACCCGCACCGGCATCCTCGGCAGCATCCGCGTCTCCCTGCTCGACCCCGCCGCCACCGCCGCCGCATCCTCCCCTTCCTCCCCGTCCCCGTCCTCCAAGTCCACCACCTTCCTCTCCTCCACTCCACCCCCCATTCCCCCGCCGCTAGCTCCGCCCCTCGCCCCTCCTCGCCGGAGTCGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.790502
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0448400.2 9 20885497 C T
Osa09LNT0448400.2 9 20886276 A C
Osa09LNT0448400.2 9 20886568 T A
Osa09LNT0448400.2 9 20886917 G A
Osa09LNT0448400.2 9 20888436 T C
Osa09LNT0448400.2 9 20888830 T G
Osa09LNT0448400.2 9 20888876 C T
Osa09LNT0448400.2 9 20889649 T 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
Osa09LNT0448400.2 osa-miR169p Cleavage 5.0 13.563 1 22
Osa09LNT0448400.2 osa-miR2864.2 Cleavage 4.0 16.852 1 21
Osa09LNT0448400.2 osa-miR5154 Cleavage 4.0 14.974 1 24
Osa09LNT0448400.2 osa-miR5498 Cleavage 5.0 22.977 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0448400.2 9 pl9 Morphological trait Panicle/flower RG570 RG667
Osa09LNT0448400.2 9 qALSRL-9 Resistance or Tolerance Other soil stress tolerance RM201 RG667
Osa09LNT0448400.2 9 nan Resistance or Tolerance Other soil stress tolerance R2638 C1263
Osa09LNT0448400.2 9 dhs9.1 Resistance or Tolerance Drought tolerance RG667 RM201
Osa09LNT0448400.2 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0448400.2 9 gy9 Morphological trait Seed RM242 RM215
Osa09LNT0448400.2 9 nan Morphological trait Root RM160 RM3808
Osa09LNT0448400.2 9 nan Resistance or Tolerance Drought tolerance RG570 RG667
Osa09LNT0448400.2 9 Ta Morphological trait Culm/leaf RZ228 RG667
Osa09LNT0448400.2 9 Symptoms Resistance or Tolerance Other disease resistance RZ228 RG667
Osa09LNT0448400.2 9 Ta1 Morphological trait Culm/leaf RZ228 RG667
Osa09LNT0448400.2 9 Ta Morphological trait Culm/leaf RZ228 RG667
Osa09LNT0448400.2 9 nan Resistance or Tolerance Drought tolerance RZ12 RG667
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