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

>Osa03LNT0193400.2

TACAGAACTATCACCTTCCAACTCTGTTAAATCTATCTGCAGTGCATGGATGAGGAGTCTGTGGCATTATGCATTTATGCTGCACTGGCATCTTTCAGTGTCAGGAAGATCCTACTGTTCTTAGGCTCCCAAGATGTATCAATCAAACTAACAAGCAGTAAAATCACACAATACTTGTCTGGTCCACTGGTCCTCTTGATTCTGTCATGCGGACAGCTTACTGTCATCAACATAACTTCTACTTATGAGTCATGACTCTACCCATTCTATATCCATTCTACAAATAGCAGAGAAAAATACCAGCAGTGACTAAATTGAAGCTTCAAATCAACAAATCATTAGCGACCTCTTCTAATAGTTCATCTAGTATGAACTCCCATGTATCAACAATAATCTCTTCACTTTCCAATTGAAGATTCATCCAAGTGCCATCTTCCAGATCTATGTTAACTAGCTGGTTCAATGTTCTTGGAAATTGATTATGGAGATGTCTCTCGATATGCTTATTTATTTCTTGGATGAGGTTCTCTCCCATTGGAGGTGGCTGTATCTTGTGCATGAGAAAAGATAAGCAAGGAGGGTTTCTAAAATATGTCTCCTGGATTATTGTTATAGCTTCACAGATACAATCAAAAGGGAGCTTTAGATCATCTGTTTGATTGCCTTGGTGTAGTTCTTCAATCATGCAAGGGCTGATCAATTCATCTTCTAGATACCACACCTCTAGATTTTGGTATGTGCATAGTTCTGATAGCTCCAGCATTGCCTTTATGTAACTTAGCCTGGCATCCTCGTCCTCCCAGAAGACCCATTGGTCTGATATAGCATCTGGTATGTGGGGCCTCATCATATCTTGATGCATCTCACATTTTATCATAGTTTCATGGTCAGGACTGTCAACATCTTCACAGAAGAATGGATCAAGGACAGATACAGGGCTGGGTTGCTCTTGCTTTTCGTGGTTCCCTTCGGGTGAAATTTGTGATATAAGTTCAAGTGATGCACTTGATCTGGGAGTTTTTGGCTCTTGGTGTTCTAGGCTCTCAACCACATTCTCAGGATAGCTCAGCAACATCCCTGCATGCTCTCTGCCAGGTTCGGCTCCTTCAATCAGTTCTAGTGATGAGGTACATGTACACTGCTCTTTTAGGGTGATCCCTTCACTGCAAATCGTTTCGGAGCAAGCCGGCTTGTCGATTTCTTCAATATGCATAATGTCACCATCTTGTGCAGTTTCTTGTTTCATGGAGTGTCTATCCTGATCAGCCTTACCATCTAGTACTTCACTATTACCACATGCAACACTCCCTGAATCTTCGTCAGACAGATCTCTTTCTTTTGCATATTCTGTCCTCTCATCCTGTTGAATGGCAGAAATATTTATCTCTTCGGGTGAAAGGTCAATGCGGCCTTTTAACCTGGGGCTACTCCTAGGTGATGATGCGTTGCGTTGAGGGAGGGAAAGCATTCCTATCAAGGACTTTGAGGTATGAACTGTTGGATGCTTGGTTGTATGACTGTTATACTCTAGAATGTCTGTCAGATGTTTCTTCGCCTCTTCATAGAAGATGGATGTATCCTTTGATGTAATTATGTCTCCGTTAATTTCACCTAGTCCATCATTCCTTTGCTTTTGCTTACCACTGGTCAAAGGTCTCAAATTGTCCTTATCTGACTGTTTAGAATCCTTTCTGACTTTAAAGACTGAATCATTGATCCTTTGTGAATCTCTTTGTAAATCATCTTCATACACTGATGGTCTTCCTCTTCTAGTATCACCAGTCACAATTTTGAATCTCCTCCTGACTTCCTTAATTGAAAATTTAGAACTCTCTGTTGCAGGGTATTTTGGAGATTGAATTGTGCATGATTGCTGATCTAAACATGTAGAGGCTGTAGCTACAGTAGTATCGATCCCTCTTGGATTTGGCTTTAGTATAACTATTTTGTTAACCATCTTACTACTATTAGTTCCTTCTGATGTACCCTTCATAATTGATTTATCTTTCCTCCAGAAAAAGATATTCCTGCCCTCTTTACTATGTGTTTTGATGGCTACCTCGTGCTGTTTTGAATTCTTAGTATTTTCACCTTTTTCAAGAATTTTCCTTGGCTCTAACTTGGTCACTACCTGTCTGTTTTGATTATTTTGGGTGTTCTCCTTCTCCAAAGTATGCGGACTCGGTTTCTGAAGTGTCTTCAAGAAAAGTTCCTTCTCTGGGCTTAGCATATCTGGTGCATCTACTAGTTTGTTAGATTGATAAGATCTGCTGTTACAAATATATTTTTCATAGAAATGCTCCCTTTGCCCCCAGTCTGGAGATTCCTCATAAGCACGTTGACAGGGCACACTCTTCAACTCACTAAGCTTTGTATGGATATGTGACTTCAATTCTGGACACAGTTCACTCTTATTTTTGCAATCATCATGGTACCCATAGAGTTCTCCCACAAAATCTGCTAAAGAAAGTTCAAGATCATCTTCTTCTGCCTGTTTCATGGATTTGGAACCACTTGGATCCAGCAAACCAGACGGAGAAGCCATGGCTGTGCTTGTGCTGTGACTTTTGGCTCTGTTTTGTTTGGTGCTCTGCATTGAACTTTTTTCCAGACAGACATCATGTCCCAGGTCAGCTAATATTCTTTGAACCTCTTCCTTGGGAATCTTTTTCACCTGTTTTACCTTACCCAGCTCGTCCTCCATGAGTCTTTTGACGGTTTGTTTCCTTGTGTCGCATTCCTCTATGTTATCCTCCCCATATTCATCTGTTTCTTCAAAGTCCCTGGATTTCTTTCTTGAGTGCCTCCTACCTGAAAGCCCACCGAAAGTGTGCCTTCTGCTTCCTTGCTTCCTGTCCAACAGAAACTTAGCGTCACGTCGGAAATAGAGCATGCCGATGAGGCCCCACATGCAGCCTATGTTCTCCTGACGCCTAGCCAGTCTTTGACTTCTCTTCCCCATGTTAGTTGGCTTGTTCCTCTACACTTTGCAATTGAAATATGCCTGATGTTCTCTGCAGTTTAGTTCATTGAGCTAATCCTCTTGCAGCAGGTTTGGTTCCTGAGAGAAACTCTGCAGTTAGCTGATGAACACTTAGGATTCATCCCGATGAACCATGCAAGCCAAGAATGAAAGAACAAAAGAAATGAGATTTTGCAGGAGCAAGAGAAGATGAAATGCAGCAAACTGGCAGCATAAAACCAACAGGTTCCAGTGTTCTGTTATTAATTTGTGTAGTGATAACCGAGAGATCGCAGGGAACTTCACCACTCTGAAGTCTGAACCAAGAAACCAGATGAAGACGAGCATTAAAATTCTTCAGGACATGTTGTTGGCCATGTGAAGAGATGCTAGGACCTGAGCTGTGCTTCCTTTTGGCAACGATGACGGAAGGAATCAGAAGCCTTTCTTGCACAAGCCTCGGTCAGTTCTAGTAGCTTTTCCTCTCTCCCCTCTTCTGTTTTCTGTTACTCCTACTTCTCTTCTCGCCCTGCTGTGAAGAGTGGACT

Coding Potentia
Explanation CPC Score
noncoding -1.01106
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0193400.2 3 362801 T G
Osa03LNT0193400.2 3 362908 T C
Osa03LNT0193400.2 3 363175 T A
Osa03LNT0193400.2 3 363262 T G
Osa03LNT0193400.2 3 363952 G T
Osa03LNT0193400.2 3 365516 A T
Osa03LNT0193400.2 3 365780 T C
Osa03LNT0193400.2 3 366468 T 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
Osa03LNT0193400.2 osa-miR5526 Translation 4.5 8.336 1 21
Osa03LNT0193400.2 osa-miR164a Translation 4.0 16.907 1 21
Osa03LNT0193400.2 osa-miR164b Translation 4.0 16.907 1 21
Osa03LNT0193400.2 osa-miR166b-5p Translation 4.5 14.686 1 21
Osa03LNT0193400.2 osa-miR395f Translation 5.0 9.403 1 21
Osa03LNT0193400.2 osa-miR160f-3p Translation 5.0 17.549 1 21
Osa03LNT0193400.2 osa-miR160f-3p Cleavage 5.0 11.061 1 21
Osa03LNT0193400.2 osa-miR164c Cleavage 4.5 17.367 1 21
Osa03LNT0193400.2 osa-miR164c Translation 4.5 16.907 1 21
Osa03LNT0193400.2 osa-miR164e Translation 4.0 16.907 1 21
Osa03LNT0193400.2 osa-miR166h-5p Cleavage 4.5 14.686 1 21
Osa03LNT0193400.2 osa-miR164f Translation 4.0 16.907 1 21
Osa03LNT0193400.2 osa-miR814a Translation 4.5 16.366 1 22
Osa03LNT0193400.2 osa-miR814b Translation 4.5 16.366 1 22
Osa03LNT0193400.2 osa-miR814c Translation 4.5 16.366 1 22
Osa03LNT0193400.2 osa-miR1850.1 Translation 3.5 14.922 1 21
Osa03LNT0193400.2 osa-miR1857-5p Translation 4.5 15.12 1 21
Osa03LNT0193400.2 osa-miR1870-5p Cleavage 5.0 20.962 1 24
Osa03LNT0193400.2 osa-miR2872 Cleavage 4.5 23.629 1 21
Osa03LNT0193400.2 osa-miR2919 Cleavage 4.0 14.499 1 19
Osa03LNT0193400.2 osa-miR812n-5p Cleavage 5.0 22.848 1 24
Osa03LNT0193400.2 osa-miR812o-5p Translation 4.5 17.279 1 21
Osa03LNT0193400.2 osa-miR5150-3p Translation 4.5 11.447 1 24
Osa03LNT0193400.2 osa-miR5154 Translation 5.0 17.066 1 24
Osa03LNT0193400.2 osa-miR5524 Cleavage 4.0 11.324 1 21
Osa03LNT0193400.2 osa-miR5524 Cleavage 5.0 16.927 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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