\
RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa03LNT0195600.1

AAATAACTTAACTATGAGAAAAGCTGAAACCTGGAAAAAGATACCAGTACAACATCAGGTCAGGAAAGCAAACAATGTACATACATAAGCCCAGGGAATCTGAATGCAACATGCATATCGTGTATGCGTGTTGCGTGATACAAGTATACAGCAACGGATAGGTTTGCATATGCATACACCGCAAGAAAATACCTCAACTGGTAGAGACAATCACACAATAGCTTTATAAGAAAGAAAAATGAAATGGTGGAGGTACAACAGGAGATGAACACTAGCAGGCTAGAACAGGGAGATTATTGTGGGTCAAGAAACCTTAAAGAGTGATGCCTTATTCTTCAGTGATGGTTTCAGTGTCAGATACAGGTTCACCATTCAAAATCCACTGTTCAAGCTCATCAAGATCATCATCATCATGTCGATACCAATCGGAGGATCTATCCCAATTGAAAGTCCCCAATTCTTCACCACGGCAAGCCATATGTAAGAATGGACGGCTTCGAACAAGGGCATCCACCATAACCCTGTTCAAGCTGCCCGTTACTCCTAGCCATCGCAATCTTGGGAAATATGGTTTCTTGAACCACCGGATTGCAAGTGGTGTAATCGCACCACAATCATAAAGATCCAGCAGCTGCAAGCTACTGCCATGGGTTCCACCATCAACTAGCATAGACGCAAGAGCCATCACAGCAGCATCTCCTATTTTCGGGTTCTCTCTCATTCGGAGTTCAATAATAGGAGTTCGACTCCTTGCTAATAACATGATACCATCATCAGTAATACCTGGTATTCTAGAGAGATCCAACACCTGTAAGCTCTGTTTAACAGAACCAGCAAACAAGAGTGGTATGCAATCATTTGTTAACTTTCGGCAACCCCTCAGAGATAAGGAAGCTAGTGGACATGTTCCAAGGCCCAGATACTTCAATGCCTGATCACTGATATCACTTCCATCCAAGAATAATATCTGCAATTTGGGAAGGCAGCTTAGAGATCTAACAGCTTCATCACCCAGACTCCTGCAGTCCCTGAGATCCAATACGTTGAGATCCTTGTTGAATGACAACCTCTCAATTCCAACGTCAGTAAGGAGATTACACCACCTCAGGCTCACATGTGTCAGGCAAAGGGAAGTGGCAATTATGTCATGGAAAACAAGATCTGTGAACTGGCTTCCATGGGACACCCTAAGCTTATGAAGGCCAGAACAAGAGTGGATGATAGCCCTAAAACCTGTGTCTGTCACGCGGGAGAAACCACCAAGACAGACACTCTCAAGACTTGAGCACTTTTCAGCCATTAGCAGGATTCCAAGATCATTTACTCGGCGGAAAGAGGTGAATAAGAACTCCTGACTTCTCATGAGAGAAATATGCTTCAACTTACCATTTGGATTAATCTGCTGAAGACCAGCATTGGTGAGATCTGATGATGTTGTAGGTTCTATTATAGGTGCATCCTGCAGGTCCAGATGTGTCAATGATGGAAGCGCAGTTGATAGTGAACCAATCAAATGGTCAGTGATGAAGTCCACGGTGAGGCATAACTTTTGGAGGCTAGGAAAGAAAACAGGTTCCTTTACATGATGCATGCATCGTTGCGATTCCATAGCCACAGTAAGAAGTTCAAGCAACATTGTCATTGGAATATATCCGATTTCTAGGGAGGTCAGGGCTTCTGAAGCAGATGCCCACACATGGCTAAAATTGGGGTCATCGAACATTGAGAAATCAAGGGCCAACCTGAGAGACTCCAATTGAGAACAGCCATTAAGCAATTGCTGCAGATCAGAGAAGCTTATCGGTAGTCCCCTACGCTCAGCAAGGGCATTCAGGGAAAGCACTCTGAGTTCTTGGCAGGTGGCTCCAAGCTCGCAGAGCAGGCGGCCGCTAATGTTATCGCAGTTGAGGAGCATCAGCTCATGGAGGTCGGGGCGGGCAAGGCAGTCGATGGCGGCGTCCTCGAGCCTAGCGCAGTCGAGGCGGATGCTCCGCAGGCTCGGGTTCAGCGGCATCAGCGGGCGGAGCAGCTCGTGCGTCAGCGCCACCTCCTTCAATCACAGACAAAGACACAAGAGGAAACGAAACCCCGTCAAATCCGTAGCCGGTGGCGATGGCGATGGCGATGCGAGAGAGCAGAGGCAGGGGGGGTGGGTGGTTACTGACGGAGAGGTGGAAGGAGGGGAGGAAGGAGAGGGCGTGGGAGGCGCAGGAGCGGAGGCAGCGGCAGGCGGCGGAGGCGGCGACGAGGGAGCGGACGTCGAGGCGGGAGAGGATGGTGGCGAGGACGGCGGACGGCAGCGCGGAGTCCATCGCCGGCGGCGGCGGCGACGAGATCGGATCTGGAGGAGGCGGGCACATGGCGGATCGAGTTCGGTGGTGGTGGTGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.976949
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0195600.1 3 1959413 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0195600.1 osa-miR172b Cleavage 5.0 22.503 1 21
Osa03LNT0195600.1 osa-miR172b Translation 5.0 15.645 1 21
Osa03LNT0195600.1 osa-miR528-3p Cleavage 3.0 19.302 1 21
Osa03LNT0195600.1 osa-miR530-5p Translation 4.5 14.735 1 20
Osa03LNT0195600.1 osa-miR535-3p Translation 4.0 21.538 1 21
Osa03LNT0195600.1 osa-miR535-3p Cleavage 5.0 19.332 1 21
Osa03LNT0195600.1 osa-miR1853-3p Cleavage 3.5 12.794 1 22
Osa03LNT0195600.1 osa-miR2118d Cleavage 4.5 11.575 1 22
Osa03LNT0195600.1 osa-miR2118o Cleavage 4.5 11.575 1 22
Osa03LNT0195600.1 osa-miR2924 Cleavage 4.5 21.493 1 21
Osa03LNT0195600.1 osa-miR2932 Cleavage 5.0 15.56 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0195600.1 3 nan Resistance or Tolerance Drought tolerance RG348 RZ329
Osa03LNT0195600.1 3 qFDN-3 Physiological trait Flowering RZ329 RG348
Osa03LNT0195600.1 3 nan Morphological trait Root CDO20 RG409
Osa03LNT0195600.1 3 qHDD3-2 Physiological trait Flowering RG348 RM231
Osa03LNT0195600.1 3 qHEJ-3 Morphological trait Shoot/Seedling RM175 RM22
Osa03LNT0195600.1 3 qST3-2 Physiological trait Eating quality nan nan
Osa03LNT0195600.1 3 QSbr3a Resistance or Tolerance Sheath blight resistance RG348 RG944
Osa03LNT0195600.1 3 qtl3.1 Resistance or Tolerance Drought tolerance RM7332 RM545
Osa03LNT0195600.1 3 QSs3 Physiological trait Sterility RG348 RG944
Osa03LNT0195600.1 3 dth3.1 Resistance or Tolerance Drought tolerance RG104 RZ329
Osa03LNT0195600.1 3 qDEF-3 Physiological trait Flowering R518 C721
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