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

>Osa07LNT0384000.1

GAGAGCGTCAGGCAGGTGAGAGGCTTATATATATTGGGTAGAAATGAAATTAATATATCCACTAATACATGAAGCCCCAAAATAAAATTTGGGTGCTTAGTAGAGCCAAGCAAACCGAATTCTGCACGGTTAATTTCAGGCTATTCTTACAAGCTTACTACGTGATGGGGTTCTTGCTCTGCATCAAAATTCTGCGCCTATAGCACAAGCACGGTTGTTGCATCGGACACTGGATGCAAATCTGTCACTTGACGCTTTGCTCCTCAGCAGCGGCAGAGAGCTTGTACTTGAGGTAGGCTCTGATGAAGGTGTCCAGCTCGCCGTCCATGACGCCGGTGATGTCCGACGTCTCGCAGGCGGTGCGGACGTCCTTGACGAGCTTGTAGGGGTGGAAGACGTAGTTGCGGATCTGCTGCCCCCACTCCGCCTTCACCGCGTCGCCGCGGATCTGCTTGATCTCCGACGCCCGCTGCTCCTCGGCGATCACCAGCAGCTTCGCCTTCAGCCGGCTCAGGGCCTTTATCTTGTTGGCCAACTGGCTCCTCTCCTCTGTGCAACGAACAGCGATGCCCGTGGGTATATGGACCATGCGAACAGCCGTCTCCACCTTGTTCACATTCTGGCCTCCTTTGCCGCCTGCTCTAGTGAAGCTTATCTCCAGATCCTCTTCGGGTATTTCTACATCCATGGACTCTTCTGGCAGTAGAGGCATTACTTCAACACCAGCAAAGCTTGTCTGCCTAAGCCCTTTAGCATTGAATGGGGACTGACGAACAATTCTGTGTGTCCCTTTCTCCCCAGAGAGATACCCATAGGCATATCTTCCTTCTAATTCAATGGTAGCTGATTTTATTCCAGCTTCTTCACCAGGGGATTTCTCAACCACTCTTGTCTTGTACCGCTGCTTCTCTCCCCACCTAACATACATCCTCAGTAACATGTCAGCCCAATCCTGGGCATCGGTGCCACCAGCACCTGCAGTAATATTAATCACAGCACCTTCCTTGTCATAAGGTCCAGAAAGAAGCTGTGTCATCTCAAAGTTATCTAGTGCTTTGTTTAATGCCTTTATGATCTTTGAGGCTTCTTCAAGAAGGCCAGTATCTATGGAATCTAACTCCTCAGTAAGCTTTACAATGGTCTCAGCTTCTTCAACCTGCAACTTCAAATCGTTGAGAAGCTTGACTCTGTCTTTGACCTCTGTCAGAGCAACAAGTATCTCCTGTGCCTTGGAAGGATCATCCCACAAGGAACTATCTGCAGATTTCTTCTCGAGCGAAGCGATTTCCTCCTCAAGCTGATCCAAACCAGCAGACTGCCTGACTTCACTGACGCGCGCTACAGCCAGCTCGACATCCTTCCGCAAAGCGTAGAAATCCTGCATGGCCCATTCGGTAGCCTCCGAACTTTCTGCAACGCTTGATTGGCTTCCTGACCCAGAGGATGCAGATTGCACTGTGTTGACCCAAGTCAGGAACGGAGGACCTGCGGCGGTGGCTGACACGGCAATATACGGGTACGGGAGGGACTCCGGCGGTGCAGACCCTCCGGTGAGCGGCGGAGCTGGGGTACGGAGAGGCGCGCGCGGCCGCCAGGAGCAGCCGCGGGCAGTCAATCATTGCCGCACTTCGGCTACAGGACATGGAGCGGGAGTGGGCGAAGATGGCCACCGGTAGGCGACGCGCCGACGAGGGTGTGGGGCTGGGGCGGCGGCGGCGGCTCGCCGGCGAGCGGAGCGGGGCGGAGAGGAGGCGAGGCGGGAGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.849299
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0384000.1 7 21668247 A G
Osa07LNT0384000.1 7 21669551 G A
Osa07LNT0384000.1 7 21670207 G T
Osa07LNT0384000.1 7 21670592 T C
Osa07LNT0384000.1 7 21670754 T C
Osa07LNT0384000.1 7 21671358 T C
Osa07LNT0384000.1 7 21671502 C T
Osa07LNT0384000.1 7 21671648 A G
Osa07LNT0384000.1 7 21671800 C G
Osa07LNT0384000.1 7 21669020 C T
Osa07LNT0384000.1 7 21670079 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
Osa07LNT0384000.1 osa-miR5526 Cleavage 4.0 21.32 1 21
Osa07LNT0384000.1 osa-miR1437b-3p Translation 4.5 21.156 1 24
Osa07LNT0384000.1 osa-miR416 Translation 5.0 20.387 1 21
Osa07LNT0384000.1 osa-miR1881 Cleavage 4.5 22.018 1 24
Osa07LNT0384000.1 osa-miR2096-3p Cleavage 4.5 14.344 1 21
Osa07LNT0384000.1 osa-miR2929 Translation 5.0 15.867 1 21
Osa07LNT0384000.1 osa-miR5487 Cleavage 5.0 17.905 1 21
Osa07LNT0384000.1 osa-miR528-5p Cleavage 4.5 24.401 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0384000.1 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0384000.1 7 nan Resistance or Tolerance Other soil stress tolerance C451 R1245
Osa07LNT0384000.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0384000.1 7 sp2(t) Morphological trait Panicle/flower nan nan
Osa07LNT0384000.1 7 qLTG-7 Resistance or Tolerance Cold tolerance R1440 R1357
Osa07LNT0384000.1 7 qLTG-7 Physiological trait Germination/dormancy R1440 R1357
Osa07LNT0384000.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0384000.1 7 Ph7a Morphological trait Dwarf RG650 C285
Osa07LNT0384000.1 7 Ra7a Others Others RG650 C285
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