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

>Osa10LNT0061500.1

AGGGGATATCCCTCTCGAGCGATATCAAAATTCACTTCCCAAAGTGAAGTGATTGTTCAGTTTTCCTCGACGAGATAGAGAGCATATTGTCACAGGTTCACAGCAGCAAGGACAAAGGCTACCATACTAATGCATTAGTCAGTGAGTCCAAAGACTGGAAGGACTCACAATCCCGAAGTGTCACCACACCAAACTACAGACGAAGGTGTCCATATAGCACCAGTTCACCAGAAATGATGCATGATCATCCATCGTTGGGGCAGGGCAACCATTCTTTAGTATCGAAACTACAGAACGGATAGTAATAACCCATTCCAATGGTTTGGGGTAGTTTCTTAAATTGCATTTACTCCAGATGGACCAGGAAGGCACCAATACGAGTGCTCACAAACAACATATTATGTTCCTCAACAAAGCCAAGACATGGTGATGTGATACGAGGCCCTGGTTCGACAGAAAGGAGCTTGTCCAGTTGAATGGTTCTCTCAAGCACCCATCCAGTAGCATCATCACAGTTGGTCTTGTTCTTCCATAGATCGAGACTAAAATCTGTGAGAACAAGGAAGACCAGCCCACCATCCTCAGCCGGCACAATCCTGCAGCGCTCATCCCAATCGGTATGCATAACCAGTAAAAGGAATTACCAACCAGGATATCAGAATGGTATGCCAAATTCCCAAAAGAAAACGCAGTTGAGATGACATTGCCCCAATTTCCGTTCTCAGATGAGTAAACGCAGACGAACGCGTTGGCCTCGTCTGCGAAGAGCATTGTCACCTCAAATGGACTCGAATGGCAGTCGCCGTGCACGTGACCCTGGTCGCCGTCGACGCAACGCACCGTCCCGTGGTAGATGGTTATCCTACTCTCGTCAAGGGATGCCGGAGGAATATCCACGGCGCCGGTCGCCGGTGACGGGGTCCCACAGCACGAATCAGCGGCGGTGGATGAGGTTGAAGAGAACGGCGCGGCCGTGGCGGGTCCAGCGCCGGGGTGAAGATGGATTCCAGGTTTTCGTCTTGCCTGAAGAAGCCGAGGAGGGGAGGCTTACGGTGGCGGGCGCGGAAGCGGCGGAGGAAGCCGTGGTCGGAGACGAGGCGGCGCCAGCGCTTGCAGACGAGGGAGGCGCGAGGGAGGGAGGACGGCTGCGGCGGGAGGCGGAGGAGGATCTCGGAGAGGAGGTCGTCGTTGTCCAGCGGCGGCGCCGGCGAGGTGGGGCGCTGGCGGCGGCGGTTCATCATCGCCGAGTTGGGGTTTTCCTTTTTGTCTGTCTTTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.931745
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0061500.1 10 2274882 G A
Osa10LNT0061500.1 10 2274818 T C
Osa10LNT0061500.1 10 2274821 C A
Osa10LNT0061500.1 10 2275326 C G
Osa10LNT0061500.1 10 2275375 C T
Osa10LNT0061500.1 10 2275431 A G
Osa10LNT0061500.1 10 2276335 A T
Osa10LNT0061500.1 10 2276388 T C
Osa10LNT0061500.1 10 2276771 T A
Osa10LNT0061500.1 10 2276773 A T
Osa10LNT0061500.1 10 2276774 C T
Osa10LNT0061500.1 10 2276875 C T
Osa10LNT0061500.1 10 2277087 T C
Osa10LNT0061500.1 10 2277217 A G
Osa10LNT0061500.1 10 2277241 T C
Osa10LNT0061500.1 10 2277377 C T
Osa10LNT0061500.1 10 2277478 G T
Osa10LNT0061500.1 10 2277606 T C
Osa10LNT0061500.1 10 2277797 G A
Osa10LNT0061500.1 10 2277926 T C
Osa10LNT0061500.1 10 2277973 T C
Osa10LNT0061500.1 10 2278352 T C
Osa10LNT0061500.1 10 2278664 T G
Osa10LNT0061500.1 10 2279135 A G
Osa10LNT0061500.1 10 2279206 A G
Osa10LNT0061500.1 10 2279337 A G
Osa10LNT0061500.1 10 2279369 C G
Osa10LNT0061500.1 10 2279430 C G
Osa10LNT0061500.1 10 2278880 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa10LNT0061500.1 DTM_#DNAt_MULE_japo_Os0360 Chr10 - 2275453 2276142 689
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0061500.1 osa-miR5833 Translation 4.0 23.53 1 21
Osa10LNT0061500.1 osa-miR399d Translation 4.5 16.833 1 21
Osa10LNT0061500.1 osa-miR399j Translation 4.5 16.833 1 21
Osa10LNT0061500.1 osa-miR1847.1 Translation 5.0 18.883 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0061500.1 10 nan Physiological trait Sterility R2309 RG257
Osa10LNT0061500.1 10 nan Physiological trait Sterility C701 C16
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