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

>Osa03LNT0235200.1

GACTGAAAAGTAGCTTATCGAATTTCATATATGCAGGTGTGTGAGCTCGGTGTTACTTCACAAATACTTGTCTCTTACACATGTTCAGGAGCTGATCCACTATGTTAGATGTAGGAGGTAAGGACCACTCATTTCTTTTGTTACTTACTGAATTACCCGTGGGCAATTAGATAGAGTATAGGTGATAATTAGCGGAAGCAAAGGAAACCGTTGAAACACCAGATCAATGGAAAAGGCATCTGTTTTCACTGAGCAGATTGTGCTAGGGTCAGGTCATATGGGGAGAGAGTGCCAGAGTGGTCGACATCGAGCTTTTCAAACTCCTCCAGAAAAGAAGAAATCTCCTCTTGGTTGATCTTACCCAGTTCTTTGAGCTTGTACACAACAAATTCTGCAGCACCAACTTGTCGATCATCATCCAGATCGGCTGCCTCAAGATCCATCTTTGTCATTTTCCGTGTGAGAACCCAATTGGCCAGCATTTTCTGCCGTCGCTCGGTGTAGATCTCAGCAAGGTACATGAAGAATTGTGCCATGATGATAGTGCTCGTGATAATCCAAAAGACCGCGAAAACACGTCCCAGTTTGGATGAGAAGCTTTTATCCCCATAACCCAGGGTAGTGATTGTGGCACATACACAGTAGAAGGAATCAACAAGACTCAGTTTCTCCACTTTCCACAGAAATACGGTCCCAGAAATAATGGATAGCACCAGAAGCAGTGCATTTGTGTAAAATTTGTACTTTATCCTGTTTGTCTCGATTGCTCTAAGCATCTTGGTCTCACCACCCTTCAGATTCGTGTGCAATGCTTTGAAGAACAGCACCTCCTGCTTCTCAACAAGATAATCTGCTACTTTGCTGACAAAGAGAGCAACAACTGCCATACCCATGAAGACGAAAGCACAAGCAAGCAGTTTTGTTGTGTCATTGTTTGGGACGAGGTCTCCATAGCCGACGGTGGTCATTGTGACAACACAGAAGTACAAGGCGTCAAGCACTCTATTTGTTCGCTTGCCTGATATCTCATCCATGACAGCATAAAAGGCCAGGACGCCCACTAGAAGATAGATAAAAAGGAGAAGTCCTACTAGTCTGAAACTTGGCCTCATCTCCTTGAATAACTCCTTGGCTTTAACTGATGAGCCCTTTTCAGGGGGGCCTTGAAGAGGATCCGTGGAAGGAGTCGACCTGCATCGTCGAAACCGATTTACTCCTTCTGACGGCTTCCGCTGCAGCACATTAGGGTTATCAGCTAGCAGTGATTGCTGAATGCTGTTGTCATCCATTGGATTAGCCTGGATCTTTCCTCCGGCTGAGGGGACGCCGCGCGTCGATCTCCTCTCCCTCTCGCCCGACCTGCCCTGAGCCGCCTGAGACGGATGCCCCGCGCGCGCGCGCCACTGCTGCTGCGCGCCTGCGGGGTTGAGGGCTCTGGCTCCTGGCTGCAACACCACACCGGCCAAGATTCTGCGCGTCGTTGCCGCGTCCGGGGCTATTCTATTTTAAGGCGTCCGGCTAACTCCACCGGAACGGTGGATGTTGTCAACGTTGGGGCTAGCCCAAATCTATCAACGAGCTCAGCGTACGCAGCCGCAGGTGTGTTCTGACTTGTGAACTTGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.982074
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0235200.1 3 31016149 A G
Osa03LNT0235200.1 3 31016294 A 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
Osa03LNT0235200.1 osa-miR5538 Translation 4.5 16.62 1 22
Osa03LNT0235200.1 osa-miR5792 Cleavage 4.5 16.382 1 24
Osa03LNT0235200.1 osa-miR6247 Translation 4.0 23.208 1 21
Osa03LNT0235200.1 osa-miR168b Translation 4.0 22.542 1 21
Osa03LNT0235200.1 osa-miR1850.1 Translation 3.0 8.393 1 21
Osa03LNT0235200.1 osa-miR1861b Cleavage 5.0 16.356 1 22
Osa03LNT0235200.1 osa-miR1861f Cleavage 5.0 16.356 1 22
Osa03LNT0235200.1 osa-miR1861i Cleavage 5.0 16.356 1 22
Osa03LNT0235200.1 osa-miR1861l Cleavage 5.0 16.356 1 22
Osa03LNT0235200.1 osa-miR2099-5p Translation 4.5 10.837 1 22
Osa03LNT0235200.1 osa-miR2100-3p Cleavage 5.0 22.189 1 22
Osa03LNT0235200.1 osa-miR2101-5p Cleavage 3.5 17.645 1 22
Osa03LNT0235200.1 osa-miR5522 Cleavage 4.5 15.188 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0235200.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0235200.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0235200.1 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
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