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

>Osa05LNT0307400.1

CAGGAGTTTATCATATACTACTCCCTCCATCCCACTAGATAAAACATGCACGTATTTTAAAATTCAACTCTTGAAATATTAGACCAACAATTAGTCTAATACAAATAGAAATTTATTTGATGAAAATAAAATCATTGAATTTATTTTCTTGTGGTTATGATTGTTGCCGCTACAAATATTATATTATAGTATACTTGAAACCAATATTCAAATATTAGTTTTAGATATTGTGGTAAGTTTGACTATGTTTTATTCTGTGGAACAAAGGGAGTAGCGTGTTTGTATCAACAAAATCATAACCTTACATAAGTACATTCAAATATCAATTCAATGATGATATTATTGTCATCAAACAGATTTTATTTATTAGACTAATAGTTGACCAAATTTTATAATCTATACCTAATTAAAAAATACGCAAGGTTTCCGATCGTCCGTTTCGTCCGTCGCCTAAAAAATCCTTCTAATGCGCGCGTGTGATCGATCCCTTATCAACCCTTCTCCGATGGCAAAAAAAAAAAAGAAAGAAAGAAAAAAAATCATGCTGGCAACCTCACCAGTACTGGCCTTCACAGCCTGCCCCCGTGCGCCTTAATCCGAGTACGCATCAAATTTGGACCCAAATCCTAGAGAAATCACTACTACAATAACACAAGAACAGATTTCATCAGCACTCATCAACACAAGAACAGATTCCATCAACACAAGAACACAAGAAAATGCCGACACAGGAAGGGCAGGGTGCCGCCGTCGCTGCCACCGTCGCAGGGCCACCAGGTCGCCACCGCCTCCCCTCCCATCCCCTCCCCTCACGCTGGATCCGGGACGCCCGACCGCCGCCGCCTCCCCTCCCGCTGGATCCAGCAGAGGGGAGGGCACCGCCCCTGCCCACCGATTCCCCACCCGCCGGGAGGGAGGGCGCCGCCGCCCACTACCGTCGAGCCCTCCCGCGGCCTCATGGCGAGGGAGACGAGACGAGGGGCGGAGAGGCGCCGCCGCCTGTTGCCGCTCGCGGAAGGAGAGAGCCGCCGACGCCGAGGAGTAGATCGCTGGCCGCCGCTCCCCGGCCCGTCGCGCACCGCTGCTCACCGGGTGAAAGACGCCGCCGGCCAGGTGGAGGGAGCCGAGGCGGAGGCACTGGCCGCCAAGGGTAGGGCGCTGCCGGCTGGGGGGAGGGCGCCGTGGCGAGCGACGCCACCATGGGTTGGGGGAGGGTGGGAGGGACGAGATGGAGGGCGTCGTCGGCTGAGGAGAGAAGAAGAAAAAGAAGGAAAGGGAAGATGCGCAATGGAGAGGACGAGTAGAGGAAGAGAAAAGATCAGGGAAAAACGAGGAGATAATGAGGGCGGAAAAATCGAGGCGCCCGGCGCTCGCTCCGAGCGGTTAGGCTGGGCGCCCTTTGTCTCTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.324174
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0307400.1 5 17846322 T C
Osa05LNT0307400.1 5 17846288 T C
Osa05LNT0307400.1 5 17846335 G T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0307400.1 osa-miR167a-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167b Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167c-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167d-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167e-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167f Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167g Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167h-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167i-5p Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR167j Cleavage 4.0 13.078 1 21
Osa05LNT0307400.1 osa-miR419 Cleavage 4.0 6.898 1 21
Osa05LNT0307400.1 osa-miR443 Translation 4.0 15.825 1 22
Osa05LNT0307400.1 osa-miR5831 Cleavage 3.0 18.616 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0307400.1 5 qLTG-5 Resistance or Tolerance Cold tolerance RM249 RG13
Osa05LNT0307400.1 5 QKw5 Morphological trait Seed RG182 RG13
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