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

>Osa02LNT0154700.2

AGCCCATACAAAAGCAAGTTCCAGAATATAGTTTCCAACATGTTCCATACAAAAGCACAGAACATGAATACAAAATGATCCATCCACCATTGAACTACACAAGTCCCAGCCGACTACCAAAGTTACTACAGGTAGTGCCAAGTTCCGGCACCAAAAAATTCCACCTAGCAGCCACTACTAAGTCTCAGCCTGCATCTTGCCAATAGCCAGCAAAAAAATTCCACCAAGCACCCACTACACTTCTGGACTGCATCCTGCAGCAGCCAACAACTAGTGCCAAAAAATCCTATGTTCCAGCAACCAACGAAAAAAAAAACTCCGGCCACCAAAAGCGCCAACTTGCAAGCAACCAGCAGCTAGCACCAAGTTCTAGCAGCAACATACACCATACAATAGCAGCCACATACACCACCAAGTTCAACTACACTAACACCAGCCATCAAATTCCAAGCTCATCCACCTCATTCCTGAGCATACAACTAGCTTAGGGAGGACTGATCTGACCCTGTCCAAATGCTATCATTTGTCGAAGGAGGCTCTGAGTATCTGCTGCCATCTTCCTCAGGCTCTCAATCTCCTCAGCTTGTTTTTCCACTTTCGCATCAGATTCTTGTGCCTGCGCCTTCAATCTTTCAAGCTCCTCCTGAAAGTACTGCAGACTCTAGCTTCTTTGCATCTAGTTCAGCTTGTATCTCTTTCATCACATTGGTTGTCTTGGCAGCGGGCTGCTGAATTCCGACGTTGCGCAAAAATGTGTTTGACTTCGGCAACACTTTGGAAACAGCTTCAATAGAAGTCTTAGCTTGCTGCCCATCTTCTACTGATGGTGAAGTGAGGGCTTCCCAGGTATGCATATCCTCTATAGCTTTCTTCACAGGTTCACTAAAACCTTTAGTTTTGCTACAATGCAACTCCTTAAAGAGATCAATTGCAGTGGGCTCACTGTCTTTGTATTTTTCTTGCTTCACGACATAGGCATGTGCAATGTAAGACCGAGATCCGGTACGCTGTTGAAACTGAACTTTTTCACGATTCAGTTGGTTTTGGCACATTTGTCCTTGTGCTCTGGGCTTGACCACATATCTACCAATTTTGTCCATTGCTCATCGGTCATACACTTCAAGGGCGATGTAGTCCTCACTTGATTAGCAGGTACCCCATCAAAGTACTTCTTTTTGAGCCTATACCTCATATGGCGTGTTCCACACCTTAGGATGTCTTCCATTGCAGCTATTACAGGATCGCTGTGGATATCAATGGAGAATTTTCCCTTCAGTTTGCCCTTTAAGTTATCAAGTTGACTACTATCATTCTTGTAGTCTGTCCAACTTGGATATATTGGTATATGCTGCCTGATTATGATCCCACTCTCTGAGGCCAGCTTTGCAGTTTGCATAGGAGCCTCTGGCCTTTTTTTCCCTTCCTTGACAATGATTGGTATCATGGTCCCTAAACCTTTGCTTATGGAATCAATCTCTTTGCCCATGCTCTTCCCCCTTGTCTCCACTTGTATACTGCTAGTGAGGGTGCCTAACATAAAACATTTACAAGTGTCAATAAAAAGATCCTGCACTTGATATGAATGAAGCATAGCACATATAAGGACAAAAGAACAAGAATCCAAGTTACTTGCCTTGTTGAGTAGTGCTCAATCCCATTGGCTCTAGTTCTGTACTTAAAGTGAGGTTGCCTTGTCCAGTATTGTTGGTGTCACCCTGATTCTGGTTTGCAGACAAATCAGGTTCGAGTCCAACCTCTGTGGCTTCAATCAGGCTAGTGGTGGACACTTGTTTCATAGCCCTTTGCCTAGTGCATCTCATTGTTTCTTCTAGATTTTCAAGTGCTAGCACTCTCTTAGATGCTCTTCCTGTTCCAGTTGTGACACAATCACCAGTGATGGCCACATCTTCCCCTTTGACTTTTTGCCAACAGCTTTCTTCTTTGCAACTGAACTCTGGAATATTTGTGCTAGTTTACGGATACCCAGCTGATTAGCAAATCGATTGTTCCTCATGATATTCCAAGCCCTCGACGTGCTTAAGTCCATGTCTTCCTCTTCTAGCATCTCCATGGCGGCCGCTTCATCTGGAAGGACCGAAGGATGGCGGGAATGTGTGCTGTTGCCACCAAGCACCATTGTCTTGCTCCTAGGAGGGAGGCAAGGGGTTGCCGCAGGATCTGGAAGGACAGAAGGAGGGTGGGGAGGCTTGTTCTTGCCGCCGAGCATCTTCCTCCCAGGCGCCATCGTCTTGCTCCTGGGAGGGAAGCAAAGGGGTGGCCGGTTTGGAAGCCGAGCAAGATCTGCAAGAAGGTTGTTCTTGCCCGGCGGCTGTGCAGATGGAGGGAGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.998082
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0154700.2 2 7996595 T C
Osa02LNT0154700.2 2 7992033 C T
Osa02LNT0154700.2 2 7992186 C T
Osa02LNT0154700.2 2 7992889 A G
Osa02LNT0154700.2 2 7994178 G A
Osa02LNT0154700.2 2 7996318 A G
Osa02LNT0154700.2 2 7994916 T C
Osa02LNT0154700.2 2 7995082 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
Osa02LNT0154700.2 osa-miR156b-3p Cleavage 4.5 24.803 1 21
Osa02LNT0154700.2 osa-miR396c-3p Cleavage 5.0 13.701 1 21
Osa02LNT0154700.2 osa-miR815a Cleavage 5.0 11.572 1 21
Osa02LNT0154700.2 osa-miR815a Translation 5.0 16.48 1 21
Osa02LNT0154700.2 osa-miR815b Cleavage 5.0 11.572 1 21
Osa02LNT0154700.2 osa-miR815b Translation 5.0 16.48 1 21
Osa02LNT0154700.2 osa-miR815c Cleavage 5.0 11.572 1 21
Osa02LNT0154700.2 osa-miR815c Translation 5.0 16.48 1 21
Osa02LNT0154700.2 osa-miR1423-5p Translation 4.5 16.261 1 24
Osa02LNT0154700.2 osa-miR1431 Cleavage 4.0 15.439 1 21
Osa02LNT0154700.2 osa-miR444d.3 Translation 5.0 17.269 1 21
Osa02LNT0154700.2 osa-miR812f Translation 5.0 21.415 1 24
Osa02LNT0154700.2 osa-miR1870-5p Cleavage 4.5 18.525 1 24
Osa02LNT0154700.2 osa-miR5155 Translation 5.0 21.185 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0154700.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0154700.2 2 qEML-2 Morphological trait Seed R2344 R712
Osa02LNT0154700.2 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0154700.2 2 qMXA-2-1 Morphological trait Root OSR9A RM71
Osa02LNT0154700.2 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0154700.2 2 qLER-2 Morphological trait Culm/leaf R2344 R712
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