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

>Osa02LNT0187600.1

GGCATAACAGGAGGGGAAATCTGAGTAATTTACAGTACATTGTGTTTTTCCACTTGATTTTTTTTGTTTGTTTTGACGGTAAAAATACATTACAAATCAAGTTATATTTGATTTCCACTGAAATAACCTACGACACAACATAATTTATATGATACAACAGTACATTTTGCCCGATTGTGCTCCGGCCATGGCTAATCCCTGCAGCTGCTCCCGAACTATACATAATCTAACGATCTAGAATACGACCCTGATTGAAATCGGGGAAGATCTCATTGCTCCCCATTTATCATCAGAGAAGGGTAAGGAACTTTGTTTATCTCGATAATGGTTGACTGCTCCTGTAGGAGTGGTTGTTTCCATGGCTCTCCATCCATCTGAACATACGCACGATTCCATTGGCCACCCCTCATTTCAAACTTGATGGCTGCAGCCTGAGCAATGTGCTTTGCTTTAATTAGCTCAGCCATAACGAATGAAGCATGCCAACCTTCTTTCAGACCGAATATTTCAAGCAATCCATCATCGGAATGAGCTTCGACAAAACCTTTTCAAGGTAATCAGGTTTAAGATCACCCCATGGATGCCTTCCACTGCCGTAGTTGTATAAATTTAAGACCACCAGGGATCTAACACTTGAAGGCATTGTAACTTGCTCCCATTCAGAACAATTGACTTTTTTAATGTAAAGTCGCAAAATGTTCTTAAGCCCCCTTAACTGAGGGCTTGCTGTACAAGGTGTGCAGAACCACCCCTGTGTGCAGCTATAACCAGCATATATCAACTTATTTGCAACAGGCCCTTGAGCAAGATATGGCTTTTCATCACGAAGATGGTGGAAGCCATAAGCAACTTGGGCATCCATCCCAATGCTAAGGTAGTTGTAGAATACTCCTTTATAGCAAGAAGCTTTCTCAGGTAACTCAGTGCCATTCTCCTGGCAAAGTTCCAAGCAGTCTGCAGGTTCCGTTTTCTTAAGTGCATATGGCAACTCTTTTATCTCTCCATCTGGCATCATAACTACAGCTTGCCAACTGTCAAGACTGCAGGTGGGAGCTGTAGCTGCCTTGCTGAGATAACGCTTCACAGCTGAACGCCAACCAAAGGGAAAAGAGCCACCCCATCCAAATGATCTGGCAAGATCATTTCCTGTACCAAGTGGGATGATACCTGTGGGTGGAACTGGTTCTCTTTTCAACCTATAAAGATCTGTGAGACAGCCAAGTACCCAACCAACTGTGCCATCACCACCAGCAACCATAATCCTCAATTTTTTTCGAATGGTCTCCGCACAATTGTCACCTTGTTCGGCCAATTTCTCCAAACAACCCAACCCGTAGTTAATGAAATCAGAAGGCTTCACGACAGAGAGATCAAAGACCTGCTCCTCGCTGATGAGCTCGTGGAGCCGCACCTTGAGCTCGGGCCCGTGCCTACCGCCGCTCCGCGAGTTGACGAACACCACCACCGGCGTCACGGCCGCCTCCACCTCCACCTCCACCTCCCCCTCCTCGCCCCTCTCCGCCGCCGCCGCCACGCCGACGGCCTCGTCCTTGGCCTTCACGGCGGCCGCGACCGCACGCCGCGCGTACAGCGGCATGACGACCTGCCTCCGCAGCTCGGCCTTGTCCACCTCCTTCCCCCACACCCCGCACGCGCGCACCGACTCCCAGATCGACACCCTCGCCGACGGCGCCGTCGACGGCGCCCTCGGCGTCTCCTCCGCTCGCTCCATCACCGGAACTACTCCGTATCACTCGCAGCCGCAGCTAAGCAAGAGCAGCTTCGAAATCCCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.996783
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0187600.1 2 33477238 C T
Osa02LNT0187600.1 2 33478316 A G
Osa02LNT0187600.1 2 33479020 C T
Osa02LNT0187600.1 2 33480264 A C
Osa02LNT0187600.1 2 33480623 C G
Osa02LNT0187600.1 2 33481112 C T
Osa02LNT0187600.1 2 33481177 A G
Osa02LNT0187600.1 2 33483119 G A
Osa02LNT0187600.1 2 33483757 T C
Osa02LNT0187600.1 2 33480900 A 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
Osa02LNT0187600.1 osa-miR5833 Cleavage 5.0 24.637 1 21
Osa02LNT0187600.1 osa-miR171f-5p Translation 4.0 15.404 1 21
Osa02LNT0187600.1 osa-miR1862e Translation 5.0 15.985 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0187600.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0187600.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0187600.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0187600.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0187600.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0187600.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
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