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

>Osa07LNT0393500.3

AGTACCGGTAAAACAGCTCAAAACTTAAATTGCCCAGAACCAAAATATGATTACAAATGGCACGAATCCTGTAGAGGATTCGAGAAGTTTAGAAGTGTTTTCAGCTTTCGCTGCCTTTATGAGGTTCCACAAAATTCGCAGTATTCGGGGCACTTCGTTGCGTCACAAGTATCCTGGGTTATTTCTTTTTCCATGATGCTGTCCCAGGAAAGTGTCAAAGAACGAACACCTTCCTGTCACCTAATCTGATGATCACTTGCTGATTGCAGTTGAACATAGGCAAGGCCACCCGTCATTCCAGCTGCAACGTTCCTCCTTACTATTGTGAAACAGGGAGGATTTGCCAACTACACAGCCACCGATCATGTACTCGCAGCAATGATCTCCAGTGCCCTGACCTCAACCACTGATTGACCAAGAGAGTTTCACCTGTTTTGCCTGTCACAAATACCTGCTCACTAGTAGCCAACACAGACAAGCGTTTCCAGCTATAGTAGCTTCGTCAGGAAGTCAGGAACGAATCCTGTGCTATCTAGTACACTCTACAGGAGCTACAACCATCTCTCCACCACCCATGCCCTGCAAATTCTTTCCAACATAATCATTGGCCTCTCTCAACTTGCAGAGTATTCCAGGAGTTAGAAAACATCCAAAAGACTGGCCCTGCACTTCCAGTAAACTTCTTCGCAATGACACCTGCTACTTGACCACAGACAGCCCTCTCAACATTATAATATCTTGGAAACCTCCTCATTCTCAATTACATCAGATATATCAGGATTTGCAAGGATTGTCTCATCAAGAACAGGGCCATTAGTGTGGACATCTTGAACACATCCAGTAGCTATTCATAGCCACAGAACCAAAACCATATTCATCCACGCCCATGACACTAGCCATAAGGACATATTGGCAACTTCTGAATCCACCATCCACCCTACCATCCTCTGGTGTGCTTCTGAAAGACCAAGTTCCCAAGGACCGGCAGAATGCTTAATCAAACTAATTGGCCTAGCTCCAGTGCCACCATCATAATCTGCTTAATGGAACTTGTGGCAGCGTCTCCATTCTGCAGACTTTTGAGATGAGCAAGTATTGGAGAATACTCATCAACAACATCTGCAAGGGGACTCACCACCTTCCCCTGAGTATCCCTCCTGTTCTATTCATTGCAATTGCAATAGCTTCATTTGTTTATCTGGAAATAGCTCCAAGGGAAGGGGAATTCCACATTGACAGGACGGTTTGCAGATGCTGGTACATGGTGTATGCATTATCACCTTTTTTTTTTTCATGAACTGCTTTGCGCGGCAGCTTTGACATCTCAGGATTATTTGCACGATATTCGCCTCCAGGTCTGTATTGGTCCTATTGGATGAACACAAAGTTTGCTAGACTCTTCGCAGAGAACGTCTTCACCCAGAATGATAATATTTCTCTGCCCAGCTAAATAAGAGCAAAGCAGGTCCATCTCAAGCCTCCATGTGACCTTTATAGTAGTCATAAAAGTGGATCGCTTAATGCACAAATCAAGAGAACCTTCACTTCGATAGAAATTGCACCAGTTAGTATATGACAAATTTGATGTATACCCATGGCTTCTATATCTACTAATGCACTCCATATCTCAGGATATTTCATCACAATGTGGGATGTATGCCTCAGGAAAAGAATCATAAGAGCTTCAGCAAGACTTTACCACTTCTTAGCAGCAATTCAGCAGTGCTGTCAAGGTTTGCTGTAGTGTTTCATGCTCAGATGCTTTAGGGTCACCAAATGGGTGTATTCCATGCTCGCACCTGCGCCATACAGGAGACTGTACTGTGGCTTCCCTTGATTGCATCCTGCTCAAGTTCCCACGCGGAGAGGAGCCCGGAGTCCTTCGTCGGCGCACCGGTGGGCAAGGCGCGGTGGTGCCTCACGGCGACCTCGGCGGCTCCGCCGGCCGCCCCCGCGCCCGCCGCCGGCGCCTCCCAGTTGCTGCACACCCATGCCGCGTCCGCGGGTTCTCCAAATT

Coding Potentia
Explanation CPC Score
noncoding -1.25031
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0393500.3 7 28632253 C T
Osa07LNT0393500.3 7 28631301 T A
Osa07LNT0393500.3 7 28631658 T A
Osa07LNT0393500.3 7 28634159 G A
Osa07LNT0393500.3 7 28634764 G C
Osa07LNT0393500.3 7 28635277 T A
Osa07LNT0393500.3 7 28635390 T G
Osa07LNT0393500.3 7 28637246 A G
Osa07LNT0393500.3 7 28637581 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
Osa07LNT0393500.3 osa-miR5790 Cleavage 4.0 19.481 1 24
Osa07LNT0393500.3 osa-miR5795 Translation 4.0 23.759 1 22
Osa07LNT0393500.3 osa-miR812t Translation 5.0 20.608 1 24
Osa07LNT0393500.3 osa-miR812u Translation 5.0 20.608 1 24
Osa07LNT0393500.3 osa-miR1429-5p Cleavage 4.0 9.822 1 21
Osa07LNT0393500.3 osa-miR1438 Translation 3.5 15.343 1 22
Osa07LNT0393500.3 osa-miR1874-3p Cleavage 5.0 21.748 1 24
Osa07LNT0393500.3 osa-miR2055 Cleavage 5.0 17.406 1 21
Osa07LNT0393500.3 osa-miR812n-3p Translation 5.0 20.608 1 24
Osa07LNT0393500.3 osa-miR2863c Cleavage 5.0 17.049 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0393500.3 7 S23(t) Physiological trait Sterility R1789 C213
Osa07LNT0393500.3 7 qPLLN7 Physiological trait Sterility RM234 RM172
Osa07LNT0393500.3 7 nan Morphological trait Seed RM118 RM248
Osa07LNT0393500.3 7 qDTH-7 Physiological trait Flowering S10832 RM1306
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