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

>Osa02LNT0158700.2

ATCTGGAACATTGTATAAGGGTGATATCAACCTAACAAACACATATGCAAGCAAACTCAAATTATTTACTACTCTCATGTGCAAGCAATAGGACACTGTTATCTGCAGGTAATTGTTCAGTCACACAGTTCTATATTTAGCTTCCATAGTATGAATGAATACACTACACCATGCCAGTACATATAGAAATATGTAGAGACTTTGAATGTGAGTTGTTGAACATTTCAGAACACTTAACAGAACAATAGCACTTGGCAATTGCATATCTTGGAAATTCTTAACTAGTTAACTGCAGCAGTTGAAGATCATGGCAGTCCTTAATCATTGGTCAAACCCAACAATGTTTTCATTTTTTTTCTCGAACATACAGGAGAGCTGAGCATCGTTATATTAAGAAGGAAAAGAGTCCAAAAGGACTCAAACAAGCCCATTAGGGCAGATTTTAGTACAAAACGGCTTGCCAAAGAAATACAAAAGGACTGCGACCATCCATGAAATAGTTTAGTTGGAATGTTTTCATGTTTTCAGAGGAATATTATCTGGCGAATAATCATCAGCTAATTCTGTGGCAAAAGCTACGCAAAGATAGGATGAAATAGTTAGTTGGAATAATTGGGCATAAAGCATTCATAGGTGGCTATTCAAGTCTGCAGTTATATACCCAGGCTTCCTGGAAAGGTGGGGGAAACTACCAAGCTGAAGTGAAGTAGGGGCACACAGAATTTCCAGTGAGTGCTGAATTGGATATAGGAAAGAAGACCAACGTGAAAGCACTCCATTTGGCCAATACTATGGTTGTGTTTAGTTCCACACTAAAATTGGAAGTTTGAAGAAATTGGAACGATGTGACGGAAAAGTTGGAAGTTTGTGTGTGTAGGAAAGTTCGATGTGACGGAAAAGTTGGAAGTTTGAAGAAAAAAGTTGGAATCTAAACGGGGCCTATTTTATATTGCATTTATTATCCCTCTCATAAGGTATTTTAGTTGCGCGTCGCTTTTTGTGATGACTTTTTGGGGTCTTGAGGGGTCCTTTTGGATCCCTCGTTTGTACATATTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTATTAATAAAATAAGGCGCAGTCCTCCTTTTTCACATCTGAATATAGATCTTCAACCCTTTTCTCTGTCTGCTTTGCAAATGACCACATTTTGTATATACTAGACTCCATCTTTCTTGATTCATCAATTAGAATTTGAACCTTTCTCATATCTGAATGTAGACCCTCTACTCTTCTCTCTGTATCCTTAGCCAATGACCATAATTCACGAACATTAGAGTTCATCTGTCTTGATTCATCCATTAGAACCATATTAACATCTGAATGCAGAGCGCTGACTCTATTATCTGTATCCTTTGCCATTGACCATATATTGTGAATATTGGAGTTCATCTTTCTTGATTCATCCATTAGAATTTGAATCTCCTTTTCCATTGCCTTGATAGTATTATCAGAATATGAGCCACAAAGTGATTCCTTGATATTCTCATGCTCATTGATCAGGGACTGAATATCCAGCCCCATTGCTCTCACAACCTCTCCATCCTCCTCCAAAGGACCACTTTTCCCATCCAATGGTTTTGAATTGTTATCCCACATAGACTCCAGCCTGGCGAGCTGGAGCTTCAGCTGCTCGATATCCGACCGCACCTCGCCGCGGAAGGCACCCTCTCCGTCATCGGGGACGACGACGGAGGCCGCGGCGCACTCCCTGGCGTGGTCGCGCGGGAGGGCGAAGATGGCGGCGAGGAGCGCGGCGGAGAGCGCGAAGGCCGCGCAGGGACGGCGGAGGTCGCCGGCGCTGCCGGTGAGGCTGAGGCGGGCGAGGAGGGAGAGAAGGCGGAGGGGGAGGAGGAAGGCGACGACGGCGGCGAGGATCGCCGCGTCGATCCTCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.614599
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0158700.2 2 12010912 A T
Osa02LNT0158700.2 2 12010913 T A
Osa02LNT0158700.2 2 12011843 T C
Osa02LNT0158700.2 2 12012173 A G
Osa02LNT0158700.2 2 12014263 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0158700.2 osa-miR5526 Cleavage 4.0 9.612 1 21
Osa02LNT0158700.2 osa-miR5530 Translation 4.5 14.826 1 21
Osa02LNT0158700.2 osa-miR5833 Translation 4.0 24.101 1 21
Osa02LNT0158700.2 osa-miR1432-5p Cleavage 4.5 14.601 1 21
Osa02LNT0158700.2 osa-miR810b.1 Cleavage 5.0 14.675 1 21
Osa02LNT0158700.2 osa-miR1850.2 Cleavage 4.5 15.845 1 21
Osa02LNT0158700.2 osa-miR5152-5p Translation 4.0 13.777 1 21
Osa02LNT0158700.2 osa-miR5492 Translation 3.0 13.798 1 21
Osa02LNT0158700.2 osa-miR5515 Cleavage 5.0 17.444 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0158700.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0158700.2 2 tgw2 Morphological trait Seed RM290 RM550
Osa02LNT0158700.2 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0158700.2 2 qCTB2a Resistance or Tolerance Cold tolerance RM324 RM301
Osa02LNT0158700.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
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