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

>Osa02LNT0156200.1

GAAATGAGATCACAGCATCTTCCTGACTAAAAAGCTGGAGAAGACATAAGAAAAAACATAAAGGAATTTGCTCCGTTTATGTCATTAGGCAAGATCGGCCTGTAATGTTCAACCGATACACAGTTTCTGGTAATGAATACATCAATATGGGCATCTGAATTTCCAAATGTAAAATTTAAGTTTCTCAAAAATGGAGATGATGCCGCCGCCGCCGCCAGGACTTTGTCTATTTAAATGCTCACAAAAGCCTGACACGATTTTTCTCATCACAAAAGAATGGTGTTGATGACTGATAATCATCTGTCCCAAAGTACCTATCCCCAAACTCACCCATCCCAGGGATGACGCGGAAATCATCATTCAGACCAAACTCGATTTCTGATGTCACGATCTTCACTCTTGGAAATCTCTTGCTGACCACATGCACTCCTTGGGGAGCTGATATAAGATTCAGAAAAATAATATTTGTTTCCTGTACACCCTTTTTCAAGAGTAGAGATATAGCTTGAACAGCTGAATTTCCTGTTCCCAGTATGGGATCCAACAACAGCACATGCCTGTTTGCAATATCTTTCGGTAAATTGTGATAGATTAGCTGTTTGCCATTGTCTCCTTCCCTGTGAATAAGAATCTTCCCAATTTTTATACCTTTGCAGCATGCCCGCAATGCATTCTCCATACTCTCACCACTTCTAATCACTGAGATACCACACAATCTTTTGGAGAACTCTACCCCAGTGTAAACCGATCCAGTTGGAGTTATGACCTGCTTTTCCTTGAATGGAAGATGACCAAGACCATGCTCAACAACCAATCGAATCAACCGATCAGCATAGAATATGAAATCATGTGTTGTTGTGGCAGCATCCCGTATTATTGTGTGCATACCTCGTATCTGATAAGTAGTCTGAATGACATACAAATTGGGGTGTACTTTACAGAGATCATGTTGACCAAGCTTAGTACGAATATGCTGAACTATTAAGTCAATTGCAACATCATTATCGCCACCTCGTGGGATGATAATATCAGCATACTTCTTGGTTGGGAGGATGAAGTCTTCAAAAGCAGGCTTAACAAACTTTGAGTACTGATCTAGCACAGTTTTGATATCTCTACCCTTCTCAATGGTGTCACGTCGAATCCTCCTTGTTAATCGCACATCAGCATCTGTGTCAACAAAGATCTTCATGTTCATCAAATCCCGGACACGTGAATCATGGAAAACCAGAATTCCTTCCAAAATAATTACATCTGAAGGATTGACCTTTCTTGCACTTGCAACACTCTTATATGTTTTGAAGTTGTAATTAGGAATGTCCACAGCCTTGCCATGTTTCAAGTTCTCCATACAAGAGAGTAGTAACTCCGTATCAAATGCATCTGGATGATCAAAGTTATAATCATGAACATGGACCAATTCCTCATCAGACAACCCATAATAAAAAGACTCCTGAGTAACAACAACTACACGCTGATCACGTAGCTGATCGATTATCATTTTGCATACAGTACTTTTGCCTGAAGATGCACCCCCGGCAACACCAATGACAAATGGCTCCTGGTGCCCATTCTCCACCCCTGAGGTCGTTGGTTGTTCCTCCCCTGTCATGGAGCCATTGATGTTAAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCAAGAACCTCATCAACTGGTCTTGAACCCATATATTGTTCCAAGAACCGGGGCGCGAAGCCACGCACGGAGATCGCCGCCGCCGCAAGAAGTTGGCCGGGGGAGATCAACCAGAACCGTGCCCAGCCCCGGTGGCGGCAGATACGGGGGACGGACGGGGAGGGGAGCGGGAGGGGGACGAAATGGGAGAGGAGGGAGAGAGAGAGGGGTTGGCGAGTCGGTGGAGGAGAGAGAGAAGAGAGAGGAGAGAGAGAGAGTGGGGGGGAGAGGTGGAGGAAGAAGCC

Coding Potentia
Explanation CPC Score
noncoding -1.14746
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0156200.1 2 9929985 G A
Osa02LNT0156200.1 2 9929093 G A
Osa02LNT0156200.1 2 9930477 C G
Osa02LNT0156200.1 2 9930684 T A
Osa02LNT0156200.1 2 9931951 A G
Osa02LNT0156200.1 2 9933238 A C
Osa02LNT0156200.1 2 9933253 T A
Osa02LNT0156200.1 2 9934347 A G
Osa02LNT0156200.1 2 9934393 G A
Osa02LNT0156200.1 2 9934572 G A
Osa02LNT0156200.1 2 9934774 C G
Osa02LNT0156200.1 2 9934810 A G
Osa02LNT0156200.1 2 9936284 C T
Osa02LNT0156200.1 2 9936760 T C
Osa02LNT0156200.1 2 9935089 G A
Osa02LNT0156200.1 2 9936825 T C
Osa02LNT0156200.1 2 9930082 T A
Osa02LNT0156200.1 2 9929485 C 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
Osa02LNT0156200.1 osa-miR156b-3p Cleavage 4.5 0.803 1 21
Osa02LNT0156200.1 osa-miR156c-3p Cleavage 4.0 6.491 1 22
Osa02LNT0156200.1 osa-miR156c-3p Cleavage 5.0 19.51 1 22
Osa02LNT0156200.1 osa-miR156g-3p Cleavage 4.0 6.491 1 22
Osa02LNT0156200.1 osa-miR156g-3p Cleavage 5.0 19.51 1 22
Osa02LNT0156200.1 osa-miR156j-3p Cleavage 3.5 19.51 1 22
Osa02LNT0156200.1 osa-miR156j-3p Cleavage 4.5 6.491 1 22
Osa02LNT0156200.1 osa-miR1862e Translation 4.5 14.185 1 24
Osa02LNT0156200.1 osa-miR1862e Cleavage 5.0 15.676 1 24
Osa02LNT0156200.1 osa-miR2093-3p Translation 4.5 16.617 1 20
Osa02LNT0156200.1 osa-miR2097-3p Cleavage 4.5 12.232 1 22
Osa02LNT0156200.1 osa-miR3979-5p Cleavage 5.0 6.31 1 20
Osa02LNT0156200.1 osa-miR5147 Translation 4.0 11.404 1 21
Osa02LNT0156200.1 osa-miR5148a Cleavage 4.0 10.779 1 24
Osa02LNT0156200.1 osa-miR5148b Cleavage 4.0 10.779 1 24
Osa02LNT0156200.1 osa-miR5148c Cleavage 4.0 10.779 1 24
Osa02LNT0156200.1 osa-miR5519 Cleavage 5.0 11.401 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0156200.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0156200.1 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0156200.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0156200.1 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