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

>Osa07LNT0391200.1

GTAGGATTCATTTAATGAGCCTAAGACAAGTACCACTACTTGTCACACCATCAGCATCAGTTCACAGCGTTAAACATTGTAACTAGCAAAAAGGATAAAGGTAGAAACTGGCAAAACATTTCAAGCTTTTCCTTGCGAAGGCGTCACATGATCACTTCGTATCAGGTATGAGTATTGTTGTAGGACAGCAATCTGATGACAGTGAAAAAAAAAAAAGAGCCATTCTGAAGGGGAACATGCCCAGCTACCTCCCTAACAAAAGTGTAGAGAAAAGAGTGCCTATTTCCTCTGCTGATAAATAAACTACCATCATGTATATAGGTGCCTGGAGATCTTGTTAGACATTGTTAGACAGGAGGAATACAGGATGGTAGGGCAAAAGAATTATTGAGACCACTGTGCATAACAAAAGCCACTGTTCAGCTTGGTATGTGCTTGCCAAGAGATTTTTACAATGTAATTCTTCCACATACACGCCAGTATGCTCCAGGGTGAAAAAGGGATCTTTCAAACACCCATATATCTTTCACAAGCACCTCTTTTGACTTATCTCCAGACACGACCTCACCTTTTGTATTATAGGCTTCAAATTTCTGTTTAGTGACGAATTCAAGCGTAAGCTGTATGAAAGCTTTGTCAAGGTCATTTTTATCGAGTCCAATCATGCGAGCCCTCAAAGTTCTTATGCACACAGCAGGCTCCACCAATTCCCAGTGAACAGAACTCCACATGGATTGTCTTTTCTTCAGTTCATTTTTTATAGTCGAATGCATTCTCTCTGTCAATATTTTACGGAGAGATGATGTGTCTCCATGTGCCATCAGTGTGTTAACCTCCTTGTATATCTTGAATGCTTGATCATAGAATTCCTTTTTGGTATAGCCTGTTTTCTTTCTCAATCTTGACACAGCATATGCATTCTTCATCTCCAGAATAACGTCCTCCTTTGTTCTTCTCCAGCCACTTGGTGTAAACCATCTTTTCCAGAAGGGGATTGGTTCCCGAATGCTGTATGGCTCATATACAAAACCAGGGCTCATCATGACAACCTTCATACCGACCTTGCGGGCACCAAGTGGCACCTTCGATGATGTTTGCGACGGTGTCGGTGCCTTCGATAATGATGGCGGCTCTGCCTGTGCTGCTGTCGACATTGATCTTGTATGATTTATTTGGAATAGTAGCTCCAGAACCTTCACAGTATAGACAGGCGACCGCCCCCTGTAACCAATCACGCCACCGGCATTGTACGGCGAGCTTGCAAAACCTCTTGCGCGTGTATTCGCGTGGATCAGCGCGAACGAGTGGGCAACCGAGGCATGGTGATCCGTAAGCGGCGGCGGAGGAGGATGGAGGAGGTGGAGAGGGCGGCGGAGGCGTCCGGTGACAGCGTGCCCGAGGCGAGCCAGAGCCATCGCCGGCGGATCGTCTCGGCGCCGGCGACGACGGGAGAAGAAGCGGCGCGCCGGCGTGGAAGTGGAACTAACCAAGGCGGCGGCGGCGGCGGCGGCGACGAGGGTTTTAGGGAGAGACTCAATCCAAGCCGTTGATAGAAAAGGAGCGGCTGTTCTTGCTTTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.942555
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0391200.1 7 27030309 C T
Osa07LNT0391200.1 7 27030426 T G
Osa07LNT0391200.1 7 27030612 T C
Osa07LNT0391200.1 7 27030982 T G
Osa07LNT0391200.1 7 27031135 A G
Osa07LNT0391200.1 7 27031180 T G
Osa07LNT0391200.1 7 27031649 T G
Osa07LNT0391200.1 7 27032321 T A
Osa07LNT0391200.1 7 27032402 G C
Osa07LNT0391200.1 7 27032592 A C
Osa07LNT0391200.1 7 27032933 A C
Osa07LNT0391200.1 7 27033415 G C
Osa07LNT0391200.1 7 27033589 A G
Osa07LNT0391200.1 7 27034380 A G
Osa07LNT0391200.1 7 27034194 G A
Osa07LNT0391200.1 7 27034281 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
Osa07LNT0391200.1 osa-miR1428a-5p Translation 4.5 20.883 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0391200.1 7 hd7a Physiological trait Flowering RM18 R1789
Osa07LNT0391200.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0391200.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0391200.1 7 qPLLN7 Physiological trait Sterility RM234 RM172
Osa07LNT0391200.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0391200.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
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