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

>Osa02LNT0161900.1

CTCGTTGATCTGCCACTCAGCATACTGTTGCGGCCCACGCCTCGGAGCAAAGACAGCCATCTCATCGCCGCGGTTGAACTTTACATGCCTAGAGTCCTCCCTTGAAAGCCTATAAGCATTGGCGACCACGTCAACGGGTAGAGCACGAAGAATGGAGGCCTTCCCTGCGATCTGACTGTCGACAGCATTGTGATTGGTCTTGAAGGATACCCATGCAAATCCTTCACGTCGAGCCTTCACCACCACTGCAAAGTTCTGTGGGATCAACAAGATCTGCTGTTGGTGAAGCTCACCATCAAAGACACTCCTACCACGGTGATCCACCACCTGGATGTGCCCTTGGCCAGCGGTCACGTACATCACCGTGTGTGCGTTTACCGTCCAATGAGGAGTAAGCAAGGCATTATTTTGGAGAACGATTCTGGTGGCACTCATCTGGATGATATTGAGTATTGGGAAATTCTGGCTATTGGCCCTTGTGATCCTTCCACCATGGGGGTTAAATATGTCACTGGATTGTGGGTTGTCTATGTTCTTCCTCAACTTAAATGCACACATAATTTCATCTAGGACATTTTGCTGGCCGCAAGCTCCACCACTTCGCAACCAGGTGGGCTGTAGCTGCTTGGTTGGCAAGTAAGCTTGGGTTTGTTCCTCTTTCACTGGCTCAACTTGGAGAGAGGGCTGCAGTGCCTGGAGCCCATTTTCAACTCTAATGATGGCACCTCTTGGGTCACTCAGGCCTTGGAGCCTCAACACAGTTTGCTTGCTCACACTCAGGGCTTCAGAAAGTAAATCTGGGCTGAACCCAGCAAAGATGTTCTGATTTCTGCTCAGTTGTTCTGTCTGGTATGAGTACGATTGCTGCTGCCAGCTACTTCTAGGCTTTCCAGCCAAGAAAAACTCCCTTCTTTTAGGATCGAGCTGGTTGGCATTGTTGCTGGTGTCGATGACAGTGAAAGCAACCACAGGAGAATCACCATTGTTATATAGCCAGTGGGCTACTCCAGCTGGCACTGCGATTACATCACCTTGGTGGAATTGGTGAAGTTGCTGGTGCTCGTCTCTCATTTTTTGGATTGATGATTGAGCCTCACCAGCTGTTGCCACCTCTTGCTCAAAGGGAGACCTAACTGACTGGAACGTCTCTGGACAACCAGGCAGTGCCATCCCAAACACTCCCCGACCTTGGACGATGTAGACAAGCTTGTGAGCATTAGCATACATTGGTAAAACTAAGCCCTTGCTCTCGACGACTAAGCGCCTCACGCTCACTCCGGCACAACGGAACTCATTTCTTGCCTCAATGTTGTAGTACTCAGTGAATCCAGCTTCAGATCTCTGCTGGTGTGTTGCCTCAAGGGCGGTGAGGTGCTCAAAACGACATTGATGACGACTATCTTGGTCTCCCCTAAATCCACGTGGGCTCTGAAGTGGGCTTCCCCCAAATGAAAATTGTGCCATGGACACTTGGAAGAAGAGAAGGAGGCCAAGGCACAATGGAAGAATGGTAGACATGGAAGCCATAGTTATTCACTTA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.773241
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0161900.1 2 14993113 T C
Osa02LNT0161900.1 2 14993180 C T
Osa02LNT0161900.1 2 14993035 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
Osa02LNT0161900.1 osa-miR816 Cleavage 3.5 20.241 1 20
Osa02LNT0161900.1 osa-miR1861b Cleavage 4.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861d Cleavage 5.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861e Translation 5.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861m Translation 5.0 13.167 1 22
Osa02LNT0161900.1 osa-miR2091-5p Translation 4.5 13.96 1 21
Osa02LNT0161900.1 osa-miR2878-3p Translation 4.0 14.715 1 24
Osa02LNT0161900.1 osa-miR5158 Cleavage 5.0 24.593 1 24
Osa02LNT0161900.1 osa-miR5497 Translation 4.5 22.302 1 21
Osa02LNT0161900.1 osa-miR5501 Cleavage 4.5 20.558 1 21
Osa02LNT0161900.1 osa-miR1861f Cleavage 4.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861g Translation 4.5 13.167 1 22
Osa02LNT0161900.1 osa-miR1861h Cleavage 4.5 13.167 1 22
Osa02LNT0161900.1 osa-miR1861j Cleavage 4.5 13.167 1 22
Osa02LNT0161900.1 osa-miR1861l Cleavage 4.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861i Cleavage 4.0 13.167 1 22
Osa02LNT0161900.1 osa-miR1861k Translation 5.0 13.167 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0161900.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0161900.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0161900.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0161900.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0161900.1 2 d50 Morphological trait Dwarf nan nan
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