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

>Osa02LNT0144100.1

GCTTGCTTCCCACATTCTCTAGATGTGCTGCCTTTTTCTCAATTGCAGTTTTATTGTCCCTAATTATTTTCACAAACTTCAGTTTTGAGCGTCTAGAGTCATAGAAACCTCCTGTCATGCCACCTTTTCTGGCAACTTGATCACCATCAAGTGTGATGCAATCCAGCCCATTGCCGCGTGCAACTTTGGTCGCAGTTTCCAGGTCTCGGCATATTACTGTTCTGCCAAAAACCTGTTCAAAGGCACGGCGATGATCGGCCCGATATTTTAGTTTCTTCAACAATGGAACGAAATCGGGACTTTGGGGGCAACTAACATCTGGAACTTTCACTCTATTCAGTGGTATAAAAGTCACCCGCCCACCTTTTTCTCGAGTCAATACTTGAATGATTCTTGTTGATATATCGTCATTCTCAACAACCACATGGAACAAACTGTTCCCTGCAGTGACCTCAACAGCAGTGAAGAACTTCTCTTCACAATCAACCAGCTCTAAAACAGGACCAAAAACTCCTGTAATACCATGGTCCCTGATGATTCTGCTAACAGAATTCAAGCCTCTTCTGATATCCCCAGGTGTTGCATGGTCCAAACTCTTTTGTGCCTTCACAAGATCATCCTTTAGCCTATCAATTTCAGCTGTCACATCAGCTTCCTCCTTCCAAAATGATTTCCTTTCTTCTTGAAGCTCATCTCTCTGCTTCCTCAAGTCATTGTAGTCATTGTGTTTCTTTGCTAGTGCAGACTCTAATTTGCTTGATTCACTTTTCCGGGACTCAATGTAGCTATTCAAGTTATTGATTTCATCTTTAAGCTTCTGGATTTCTTCTTGAAGTAAACCTTCCTGCTTTCGATTTGATAAAAGCACACGCTCAAGATCATCAATTTCCTTTTGAAGCCACTTATCTCTGGCAGCTTTGTTTGCGAATTGGGTTGCCCTCCCCTGCTTTTGGTACAATATACTTAACCGCTTCTCACGGTCCATTATGCTTTTTGATATTTCTTCCTCTTCCTTTAATTTGGCTTGATGCACCTTACTAATTTCAGCTAATTCGGACTTTGACTTTTCACTCTCCATCCTCACGCTTTGTAAATCCTTCGCAGCTTCATCCTTTGCCCGTTTCTCGTTCAAGATTCTGTCTTTTATGTCTCTCAAATCAAGCTCAATCTGAGCAACTACCTTCAGTGCTTCTGTACGCTTCTTCTCTACACCTTCCTTTTGAGCCTTGGTATCATTTATCCCCTTAGTTGAGTATTTTATTTCTTTGTCAAAAGTCTTCACCTTCTCACGTACATCTACCACTTCATTATCCGCATGGGACATTCTTTCAGAAATTTTTCTTCGGTTATCATCCATCGAAGCTAATTCGTTCCTAGCCTCATTTAGTTCATGGTCCAGTATGGTATACTCAAGTGATCTTCTTTGTTTGTCCAGCTGCTGGTACTTCTTCAGTTCTTCTTTCTCTTCATCAAGTTCTCTCAACCTTTCCTCCAAGTAGTGGACAACTTGATCAATCTGCTTTCTTTTGTTGGCTGTTTCCTGCATGATTTTCAAACTCTCGCGTCGTCTATCTTCATAAACGCGCGTACCACCGATCTCTTTGAGGAGATCCAGCCGTTCGGAATCTTTCATTAGGGTAAGGGATGCAATCTTTCCCTGCTGGACAACGTAGTATGGATTAGAGCGAGAAAATCCAGCACTCTCTAGCAGATTCATGACTTCAGTTTTACTAACATGCTTCCCATCCAAGTAGTATTCATCCTTCTTTGAAGCAACTGTCCTGCGCAGGCGTACCTCCTCTTTGTCAACTGGAATACGGTTGTCTGAATTATCAAACACTATCTCAACAAAAGCCGAGACAACCGAGTGACCAGCACCTTCATGAAGAAGAGCGCCCCTGTCTTCACTGCGCAGGTTTTGAAACATGTCACTGAGGACAAACCGTATAGCATGGAAGAAATTTGATTTGCCAGATCCATTTGCCCCAACAACTACATTAACTTTGGGGCTGAAAGGTTCTGTTGAGATCTCCTCCCTGTAGCTCTTAAATCCTTCTATCACAACTTTCTTTATATACATGGTTGAGACAGGGTGAGCTCAATCCACCATGAAATCCTCGACGAAATGGGGGGAGAGAGAGACGACGACGACGACGCACTCCACTCCGCTGCGAGGGCGAGCGCGAGCGCGAGCTAGGGGAGCAGTGGAGTAGCTAGCCGAGGAGCGAGAGAGAGAGAGAGAGAGAGAGGGGGGGAGAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.962982
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0144100.1 2 1759577 G A
Osa02LNT0144100.1 2 1761689 G A
Osa02LNT0144100.1 2 1763205 A G
Osa02LNT0144100.1 2 1763818 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0144100.1 osa-miR5526 Cleavage 5.0 5.987 1 21
Osa02LNT0144100.1 osa-miR5806 Cleavage 5.0 15.049 1 21
Osa02LNT0144100.1 osa-miR319a-3p Cleavage 5.0 11.409 1 21
Osa02LNT0144100.1 osa-miR535-5p Cleavage 5.0 16.712 1 21
Osa02LNT0144100.1 osa-miR535-5p Cleavage 5.0 8.079 1 21
Osa02LNT0144100.1 osa-miR1865-3p Cleavage 3.5 15.863 1 24
Osa02LNT0144100.1 osa-miR2867-3p Translation 5.0 19.431 1 20
Osa02LNT0144100.1 osa-miR2921 Cleavage 5.0 24.784 1 24
Osa02LNT0144100.1 osa-miR3979-5p Cleavage 5.0 16.933 1 20
Osa02LNT0144100.1 osa-miR5144-5p Cleavage 5.0 12.745 1 21
Osa02LNT0144100.1 osa-miR5147 Translation 5.0 8.944 1 21
Osa02LNT0144100.1 osa-miR5155 Cleavage 4.5 12.709 1 24
Osa02LNT0144100.1 osa-miR5499 Cleavage 5.0 11.897 1 21
Osa02LNT0144100.1 osa-miR5504 Translation 4.5 14.308 1 21
Osa02LNT0144100.1 osa-miR5513 Translation 4.0 16.458 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0144100.1 2 S29(t) Physiological trait Sterility nan nan
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