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

>Osa03LNT0239600.1

GCTCCCCCTAATCATTTCGTCTTCCAAGAAGACGGCGTGTCTCGTTTCTACAAACTTTGTATAACTGTTTGGACAGTAGAAACGATGACCCTTTGATCTTTCAGAATAGCCAATAAAATGGCAGCTTACTGTTTTGGGTTAAATACTTTATCCTTTGCAGGACTCCCCCACACACGGAGGATCCATAGCTCATACGGTGTTTTGGGCACCGATGCATTCTATACATTGTATGCATCGTTCTAAAACTGAGAACTCCAATGGAGGAAGAACTACATTCTTAACAGTCTCTCAATTCTCCCCCTCGAAATATGGCCTAAACAACAGTGCCATAATTTCGATGAGACATCAGGAGTTCGCTTTCTTTTCTTTTGTCAACGAGGACACAACATTCACATTCTCAGAAAGAGATAACAAATAAAGCTGATCTTGCAACATAAGACCAATACATTCATTATTATACCATAGTTCACATTTGCCATTTCCAAAATGGCAATCATATCTATCAAAATCCAATTTGGATACACTTATTATCAAGTTTCTTTGCAAAGAAGGGACATAAAAACGTCTGGAAGTAAAAGTGTGAAGCCATTCGCGAGTTCTAGGCGAAGATCTCCAACAGCCTCAACTTTTGCTTCAACTCTATTGGCAACTCTAATGGATCTTTCACTTCTTTGCGTAGTCCTCATTGAACGGAATCCCTTTAAACAATTACACACATGAATAGTTGCTCCAGAATCAATCCACCATGTGGATCTAGAATAACCAATCATAATGAGATTCTTTACAAATGTAATAATGTTCTCACCTTTCTTTGCCATGATCACTGTCAGGAAGTCAGGATGATCTTTCTTGGAATGTCTTGTCTTCTTGCAATGTAGACACTGATCTTGTCTCAACTGTAAACTGTTGCTTCTGAGGCAGATGCTGAGGCTGTTTTTCTTTTGAGGAGGGTGACCTGTGGCTCTTTTCCTTGTTATCTTTGACAAGGTTAATGGAGTCACCATTGGTCTCTTTGTGTCTTTCCTCCTCTTGCACACAATTAGAGATGAGCTCTTCAATATTCCAATTCTCTGTACTTATTTTGTAGTTGACAACAAGGTTGTCAAAGTTCTTTGGCAATGAGGACAAAACCAGATGGACCAGAAAGTCATCTGAGATGCCCAAATCTTTTTGCTTCAATTTGGAAGCCATGTTGCTCATCCTAAGAATGTGGTCTTTTACACCACCTCCATGGTACCTCTCTGTAACAAGCTGCTTTATCAGCTGTGTCGCATAAAACTTTGAAGAACCAGTAAACCGGCTCTTTATACTTTCGAGGTACTTAGAGACAGTGTCATACTCTGGGATTGAGCCCAATATGGTTGGCTCAATCGTGTTCTTTACCGCAGCCAAACAATTCTTGTTGGCTGAAGACCATTTCGCATGCTCAATGTCATACGACATGATGAGGGAAGCATTGTCCCTCTCTCTCTTTTGCCATTCAGCATCTGACTCTTTTTCACCTCTGAAAATTTCAGCAGGTTCTATAGGACATGGGGTAGTCAACACCCAGTCCACCTCTCCCAAGATAAAAGCAAGGTCGAGTTCTCTTTTCCATTCTTCGTAGTTATCTCCTTTCAGGGTCGGAATATCTTTAATGTAACCCATCAAGGAGTAGCCATCGGTTGACGCGTTGGATGAAGAGGAAGTCCCAGCCATCGTCGTTGTCGTGCTCTGCTTGACGTTGGCGGCGGCGGCGATGGTGGTCGTGACGGCGACGGTGCTGCGCGGCAGTGGTGGTCGTAGGGGATCCCGGCGAGGTGGTGGCGCGGCGGTGGAGTCTTCCCGTCACTGGCTGCGCCCCCTCGATCGGTTAGGGTTTATGGGGTGGAGTGGCGGCGGCGGCGACGAACCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.338325
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0239600.1 osa-miR156a Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156b-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156c-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156d Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156e Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156f-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156g-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156h-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156i Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156j-5p Cleavage 5.0 18.275 1 20
Osa03LNT0239600.1 osa-miR156k Cleavage 4.0 18.275 1 21
Osa03LNT0239600.1 osa-miR156k Translation 4.5 15.636 1 21
Osa03LNT0239600.1 osa-miR1847.1 Cleavage 3.5 18.96 1 21
Osa03LNT0239600.1 osa-miR1850.1 Cleavage 5.0 9.783 1 21
Osa03LNT0239600.1 osa-miR1850.1 Cleavage 5.0 21.248 1 21
Osa03LNT0239600.1 osa-miR1851 Cleavage 4.5 14.851 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0239600.1 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0239600.1 3 QSn3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0239600.1 3 nan Resistance or Tolerance Drought tolerance R1618 G164
Osa03LNT0239600.1 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0239600.1 3 Qbp1 Resistance or Tolerance Insect resistance R1925 R2443
Osa03LNT0239600.1 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0239600.1 3 qPES-3 Morphological trait Panicle/flower G249 G164
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