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

>Osa09LNT0451500.2

AGTTTAAAATCCAATCTCATATATAATATCGTGGGGGTGGTACAGTTTCATGTAGATATCTTTTCATGGAGTGCTACTGCTAGCTAGGGGAACTTGGTCACTGATAATAATAACTACAGCAGGTGATCATGCAAGTGCAAACCAAGATAATACTCCCTCCGTTTCATATTATAAGACTTTCTATCATTGCCCACATTCATATAGATGCTAATGAATCTAGACATATATATGAATGTGGGCAATAATAGATAGTATTATAATATGAAACGGAGGAAGTATATCTTATGCATGTGCACCGCCAACAAACCAGCTAATTACACTATACATACATGCTATGCTGGCTGGATCTTGCTGTTTCCTCATTCTCCAGAGACCCCAAGAAGAGGACGGTACATCTGCATATGGGCTATAGCATCAGATGTAGTTGATGGAGATCAGGTACAAACATCCGTGACAAGCATCCAACTTAACTAAGAGAGAGAGATCAAGAGATGATGATGCAGTCGTCGTCCCCGTTAGGCTGGGCAGTATAGTTTAGTAACAGCCGAAGAAATACTAGTAACTAGCAGAGTGATGGTATCTCCTCTCCGGGCCAGGCAGCAAGATCAAAACTACTCAACTCAACTCAACTCAATCGTCCACTCCGGCCTTGCTCCTCAGGTGCTCCTTGAACTCCATGATGTCACCTTCCCACCTGGTCACCGCCTGCTTTTCGCACACCCATATCTCCTGCGCCACTTGGTTGATCAGCCTGAAGTCATGGCTCACCAGCACAAGCCCTCCATCCCATTCATTCAGCGCCTCTGCAAGAGAGTCGATTGTTTCAATGTCCAGATGGTTCGTTGGCTCATCCAGCAGCAGCATGTGTGGCTCCCTCCACGCCAACCATGCAAATATCACTCTGCTCCTCTGCCCGTCCGACAGGTTCCTCATTGGCATTACCTGTGCCTTCCCTGACAACCCAAACTTGCCGATGGCTGCCCTCATCCTCTCCTCCTCGTTCCCTGGGTATTCCTTCATCATGTACTGCAGAGCTGACATGTCCAGGTCCAGCTTCTCTGCAAGGTGCTGGTGGAATTGTGCGATCCTGAGATGGTTGTGTCGCCTCACCATGCCGTCCAGCGGTATGAGATCACCTGTCATGAGTTTAAGGAGCGTACTCTTCCCAGCCCCATTAGGACCAACCAGCGCCACCCTTGAGTCAAGGTCAACACCAAAATCTAGGTTCTTGTAGATCAGGTTGTCTGGTGTGTACCCAAATGTGACCTCCACAAACTGCAGCACTGGAGGTGGTAGCGTGCCAACATCAGTGAAGCGGAACGTCAATACCTTATCCCTTACAACCTTCTCCGTGAGCCCACCACGCTCCATCTTAGCAAGAGTTTTCTCTTTACTTTGAGCCTGTCGGGCCAGCTTGGCAGATCCGTGACCAAACCGTGCAATGTACTCCTTCATCGAGGCAATCTGGTCCTGCTCCCATCTGTATTGTTTCATTTGATTTTCTTCAAGCTCGGCTCGTGTTTGGACATACTGGTCATAGTTGCCAGTGTATAGCTTGAGCTTCCTGTTTTGCATGTGGATGATATTTGTACATACTCCATTTAGGAAGTCCTGGGAGTGTGATATGACGACAAGTATACGGTCAAATTTCTTCAAGGTTTCCTCCAGCCAGACACAGGCCTCAAGATCTAGATGATTGGTGGGCTCATCAAGCAAAAGGATAGTTGGATTCATGAAGAGCGCCCTAGCCAAAGCGATCCTCATGCGCCAACCGCCAGAGAAATCACAGGTTTTCTTTGCCTGCATGTGCTTGTTAAAACCCAAGCCAAACAAAATCTCTGCAGCACGCTTTTCAGCGGTGGATGCGTCGATGGCTTCTAAGCGTTCATAAACGCGGTCCAGGGCTTCGCCGCCACCGTCATCTTGAGCGGCCAAGATTTCAGCCTCCTTCTCGAGCTGGAGTCTCTGTTCGTCACAGCTGATGACAGCTTGTAGCGCAGACATGTCGGAAGCCTCGATCTCATGGGTGAGATGATAGATGTCCATGTGTGGAGGGATAGGAAGCTCCCGGCATCCTATAGCTTTGAGGAGACAGGACTTTCCACAGCCGTTTAAGCCAAGCAAACCATATCGCCTGCCGTAGTTGAGCTCCAGGTCGGTGTCAAGAAGCAGGTCATGGCCGTGGAATGTGAGGGAGAGGGACTCGATGTGGATGTCGCGGGAGAGGGGATGGGAGGTGAGGACGGCGGTGCAGGTGCGCTCGGAGAGAGTAATGGCGGCCTTGGCCTTGTCACCCCTCTTGGCAGCGGCGGCGGCCTTCTTCTGCGCCGCCTTCTTCTTGCTGGCGTCGGACACCATAGCTGATGCTGGTGCACAGAGAGAAATCGAGAGATCGATCGAGAAGAAACACAAGAATGAGAGAGAGAGAAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.812362
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0451500.2 9 22883302 T C
Osa09LNT0451500.2 9 22883391 C A
Osa09LNT0451500.2 9 22884030 T C
Osa09LNT0451500.2 9 22884528 T C
Osa09LNT0451500.2 9 22885696 G A
Osa09LNT0451500.2 9 22886634 G A
Osa09LNT0451500.2 9 22884365 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
Osa09LNT0451500.2 osa-miR5825 Translation 4.5 18.89 1 24
Osa09LNT0451500.2 osa-miR6247 Cleavage 4.0 17.543 1 21
Osa09LNT0451500.2 osa-miR818f Translation 5.0 14.387 1 21
Osa09LNT0451500.2 osa-miR7693-3p Cleavage 5.0 21.604 1 22
Osa09LNT0451500.2 osa-miR160a-3p Cleavage 4.0 19.92 1 21
Osa09LNT0451500.2 osa-miR160b-3p Cleavage 4.0 19.92 1 21
Osa09LNT0451500.2 osa-miR160c-3p Cleavage 4.0 19.92 1 21
Osa09LNT0451500.2 osa-miR160d-3p Cleavage 4.5 19.92 1 21
Osa09LNT0451500.2 osa-miR394 Cleavage 4.0 23.727 1 20
Osa09LNT0451500.2 osa-miR160f-3p Cleavage 4.5 19.92 1 21
Osa09LNT0451500.2 osa-miR166k-5p Cleavage 5.0 12.614 1 21
Osa09LNT0451500.2 osa-miR171d-5p Cleavage 5.0 22.747 1 21
Osa09LNT0451500.2 osa-miR166h-5p Cleavage 5.0 22.422 1 21
Osa09LNT0451500.2 osa-miR171i-5p Cleavage 4.5 18.921 1 21
Osa09LNT0451500.2 osa-miR530-5p Cleavage 4.5 23.095 1 20
Osa09LNT0451500.2 osa-miR530-5p Translation 4.5 12.068 1 20
Osa09LNT0451500.2 osa-miR1436 Cleavage 4.0 16.353 1 21
Osa09LNT0451500.2 osa-miR1439 Cleavage 4.0 16.02 1 21
Osa09LNT0451500.2 osa-miR1846d-5p Translation 5.0 13.892 1 22
Osa09LNT0451500.2 osa-miR1857-5p Cleavage 5.0 19.929 1 21
Osa09LNT0451500.2 osa-miR1865-5p Translation 5.0 16.607 1 24
Osa09LNT0451500.2 osa-miR5161 Translation 4.5 14.343 1 20
Osa09LNT0451500.2 osa-miR5798 Cleavage 4.5 20.007 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0451500.2 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0451500.2 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0451500.2 9 qTN-9-2 Morphological trait Culm/leaf RM215 RZ404
Osa09LNT0451500.2 9 nan Morphological trait Root RM215 RM205
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