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

>Osa07LNT0388900.1

AAAGTACAAAATGCATTTTTTTTCTTCTCACAGATGTACAAAACTTCTCTGTGCTCTACATTGTCGTTCTTGTTCCGTTCAATATGAAGAAAAAAGTCGCATGACTTTAGGTACATTTATGTGTGCTATGAGCCTATGAGAATCAATAAACCAAGGAATACCCCGCCTCTGTCGTTACAACAGCAGGCTTCCTACCCAAGTGTACAGCTGCAAAGCCTGCAAGAAACCGCACAACCAAGGACATTTTTTCTTCTCACCGCGTAGCCTGGAGAAGGCAAGAGGATGCCAATTTGTTATATTCGCGAGATTTATAGGAGCCATACTCCTCAAACGACATATGCATCTGTGACAGGGGGTCTGGCTTATGGTGTGTTAAATCTTCTCAGCTGTTTCTGTACGCGCCATCAGCACCTCGGTGCGTTTACTCCTTTCCATTTCTTCCACCAACCAGTCAATACCAGCTTTGATTCCCGTCCCGTCGTAGGCAGATCCAGCCTGGAACATATATGGCCTCTCGTCTAACCCTTTAAGGTGAAGATGCCTAGCCAGCTCTTCCTCTGTCACAGCTGCTGGTAACTCCTATTGGCATGTGCAGATAATCCTCCAAATATGAGAATATATGGCGGCATGTGAATATTCGTAATAATGAAATGAGCTGAAAGAGCGCTCTAAAATGAATAATAAAAACAGTTCTTGGTCTTTTTCGCTTATCTGTATCTCCTTCAAGGGACTTGAAGTTTCAACACCGAGGATGAAAAGAACGGATAAACTTTTGAAGGCATTTAATCAACAATGAGGATGAAAAGAGTAGGCAGACTCTAGAAGAATTTTTACTACCAAAACACACATGGCTAATTTCCATAATTAACCCTCTTCTCACATTGTTATGCATCTGAAATCAAGTCCTTCAGAAAATCTGACCTTTTATCACACTACTAACGCAGTATGGTGTGGTTTAATTTGATGCCTACTGTGCTGGCTAATTTTTCCACAAATGGAAATTTTCATGCAGGAAGACAAAGTTTTCAACTAAGTGAATGCATGTAATTTAGTATAGCGCATAAAAGAATTTTCATACAAGTGGAAGGTAAACCACCTGCTTGTTTGCAAATATGAGTAGAGGCACTCCTTGCAGATCCTCGTGATGAAGAACTTTCTCCAGAGCAGATTTGGCATCTTCAAATGATGATGCAGCAGCAGAGTCAATAACATATATGACAGCATGTGCCTCTTCGTAATATTTCTCCCAGATTGTTCGTAGGCCAGGCTGGCCTCCCAGATCCCAGAAAACAAGTTTTACATTGGCATCTTCAATACGTCCAATATTAAGCCCAACTGTTGGAACGATACGATCATGTGGAAGGCCTTCCTCTTTCAAATAGATTGACTTCACCTTTTCTAGCAAGGTCGTCTTCCCAGCCTTGTGAACTCCAAGGATAACTACATGGAACTCTGCCTTGCTGAAGACATGCTGCCATAGACCATAGAACAAGGAGAACATTGTTGTAGGACTTTTCTCTCAACTATCAGCTCTACTAATGGTCCACTAACACAATACGTCCGGAGAAGCAAAACCGGTGACGTCGTTCTCGGCCCTCGTCGGCGGCGGCGGCGGCGGTCGCCGTCGCGTGCGTTCGCCTCGTCGTCTCCGGCACGCACGCACGACAGGAGAGGA

Coding Potentia
Explanation CPC Score
noncoding -1.29773
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0388900.1 7 25646754 T C
Osa07LNT0388900.1 7 25646026 T C
Osa07LNT0388900.1 7 25646141 G A
Osa07LNT0388900.1 7 25646420 A C
Osa07LNT0388900.1 7 25647896 T C
Osa07LNT0388900.1 7 25648944 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0388900.1 osa-miR1883a Cleavage 4.0 15.327 1 24
Osa07LNT0388900.1 osa-miR1883b Cleavage 4.0 15.327 1 24
Osa07LNT0388900.1 osa-miR2905 Cleavage 5.0 17.115 1 21
Osa07LNT0388900.1 osa-miR426 Cleavage 4.5 13.71 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0388900.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0388900.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0388900.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0388900.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0388900.1 7 nan Physiological trait Eating quality R1245 RM234
Osa07LNT0388900.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0388900.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
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