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

>Osa02LNT0156300.1

GGACCGGAAGACCAAATGCATATTTGTATAGCCATATATAGTAGCTGAATGTTGAGCAGTCAGGCCTATTTTTCTGCACGTGTTATTCACCTATTCTGGCTACTGAACACCTGAAACAGGCCAGTTTAACAGAAGAAGGAACTCCAAGCATGAAAGAATTGTTGGTATGTAACGGCACCTTGACAAGGTACGGTCAGTTCTTGATCCTGAGCAGAAAAGAATGGTCAACTTTGTCCCTACAGTAATGTCAAACCATGTTGTAGTGATTTATTCACATTGTGTTTCTAGATCAACTTGAGCTTCATTGTAATCTGGCTCTCAGTTGCGCCGCGTGACACATAACCAGGTCCGGTCCTTCTCTAGTGAACCTTCCTCAGAGACAACAGGGATATGCCACTGACCATTCTCAGATTCCTGAATTACAACTGAGCAAGGAGGAGGCATTTGAAGTGTAACACAACTGTCCTCAAAATTGAAGCGTACCTGATGCCTTTCCTTCCATTTGGGGAAGAAATCTCTTTCCAAGAGCTGAAATGTGTGGTCTCTCATTTCATCATTGGTAACCATCAAGCATTTGCATCTGATAGCAGCATACAACCAGTACCTGAACAATCATCATTTGAGCCAGTAGGGGTTGCATAAATAGCATTAGAAAGCTTCCACTTTTCCACCAACTTACGATTAGAAGGCTTTTGCATGCGCTCTCCAGTGAGATGTCGGTTATGCACAACTATCAAAGGGAGCTTTCTTGATTGAAATCTTTGCCGTATAACATCAGCAACAATATTAATCTTACTCAAGGAAATATGCTTATGGCTAAAAAGGCCAACGTTGGCACCATCCACAACTGCATCAAAAGGGCCATGCTTTTCCAACCATTTCTGAAAGTTATCAAAGTTTGATCTCCTCTCTCTTTTGATAGCTAATTTTGCCACCAATGTGGCAAAATCTTCTGTTTCTTTTGGATCAAGATCTATAATAGTCAATTTTTCTCCACAAGCAAGGCATGCACCATTCCTGTCGATGTGCGAGTGTGATATGGTCCATTTCCCCCTTCCTAACCATCCTAACCCATGCCAACCCCCACCATTGTTCTCAATAGCTTTTGTTATAGCACCTGAATCCCATTTTCTCTTCCCCACTTTAGATGCTGTTGGGCTCTGAAACCAATCCTCAAGTAGTTTAGCTGTGGTTGAAGATGCTTGTCTGACAGTAGTCCTGAACTTATGCAACAAATAATAAACCTTGTCTCCTTGTTGTGCGGCCACACTAGCCTTGAGAAGTGTCTCCAACTCAGGCTCTTCAGGTCTGACACCAGACTCCAACATATGTGCTTCCACCTCAAATGCTTTCTCAACATTGCCGCTATTGCAGAATGCCGTCAAAGCAGGACCATATGACCGCAACTTTGGCGCAATACCTTGATCCTTCATTTGCTTCACAACATCAAAGGCCATGTCACCGTTGCCCATGGACATCGCCATACGAGCCACTGCAGTCAGAGCAGACTCATTCATGGGAACTTTCTCTTCCTCCGAGCGCATCTTCTCAAATATCTCAAACCCTCGAGTTCTTGCATACTCCCTCAGCTCATCACTCACTGGAATTCGACTCGGTTTCTCCGTCCCATCATCCGAAGCAAACAAATCGGTCTTGTTTCCCTCCTGATCTTCAGAGTGGCCTTCAGATTGTACATCGTCTCCCTCCAAATTTCCCACGCTTTGAGTAGACGATGAATGTAACTGCCCAATACTAGCAATCCCACTACCGGCATTGCCACTTTTCGCCGGTTGCACAAACCCAAGCGCCGCAGAAGAACACAGGTAAAGGAGCACGCTGTAGTGATGCTGCCCCATTTTGATCCCTTCCTTCACCGCAGAATCATACAGGTTGATGGCTCCAATCACGTCTCCCCTCTTCGAGCACATGTCCAGCTCGACTCTCAGCTTGACTTCGTTCTCACCACCCTTGGCTTTCTTCTTCCCCTTCCTGCTGGCATTGCCACCACTACCGTTACTCTGGCATCTCCCCGAATTTCCAGCCTTTCCAGATTCCCGCGCTTGCGTTTCGCCTCTCGTCCAGCGCCTGCCCTCCCTGCGTTGTTTGAGATCCCCACCCCTCCTCGTTCCCTGAACCTCCCCGTCGTCGGCGGCATGTTGTCCTCCGCGCGCGGGCCTGTCCTCCCCTCTCCTCCACGGCCTCGCGCCGCCGCCATGACGGCCCCGCCCATGCCGCCCCGCCGTGCCGGCCTCCCGTGTGGCCACGCCGACCTGCGCCGTCGCGCCTTTAGCGCCAGCTCCCTCGGCGGCTCTCGGGCCGGCGACGCGGTCTCCCTGGGGCATTACGTCGAGCACCTGGCGCGCGTGGCACGAGAGCGGCGGGAGGAGGAGTCGCCTGAGGGAAGCAGCGGGGGATGATGAGGTGGTGGCTGGGAGGAGGAAGAGGAGATGAGGAGGAGGAACGAAGAGGGGCGCCATGGCCATGGCGCGCTGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.640307
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0156300.1 2 9983044 T C
Osa02LNT0156300.1 2 9982005 A C
Osa02LNT0156300.1 2 9982561 C T
Osa02LNT0156300.1 2 9984118 A G
Osa02LNT0156300.1 2 9984705 A G
Osa02LNT0156300.1 2 9985026 C A
Osa02LNT0156300.1 2 9985152 G A
Osa02LNT0156300.1 2 9985537 A G
Osa02LNT0156300.1 2 9985579 A G
Osa02LNT0156300.1 2 9985723 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
Osa02LNT0156300.1 osa-miR5802 Cleavage 4.0 18.735 1 24
Osa02LNT0156300.1 osa-miR528-5p Cleavage 4.0 16.482 1 21
Osa02LNT0156300.1 osa-miR1436 Cleavage 5.0 12.661 1 21
Osa02LNT0156300.1 osa-miR1847.1 Cleavage 5.0 14.454 1 21
Osa02LNT0156300.1 osa-miR1850.1 Translation 4.0 11.582 1 21
Osa02LNT0156300.1 osa-miR1850.1 Cleavage 5.0 13.328 1 21
Osa02LNT0156300.1 osa-miR1866-5p Translation 4.0 8.561 1 24
Osa02LNT0156300.1 osa-miR2105 Cleavage 4.5 14.872 1 20
Osa02LNT0156300.1 osa-miR3979-3p Cleavage 5.0 13.5 1 20
Osa02LNT0156300.1 osa-miR5074 Translation 4.0 21.547 1 21
Osa02LNT0156300.1 osa-miR5338 Translation 4.5 14.088 1 21
Osa02LNT0156300.1 osa-miR5511 Translation 3.5 14.662 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0156300.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0156300.1 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0156300.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0156300.1 2 qMRLd2 Resistance or Tolerance Other soil stress tolerance RZ324 R712
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