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

>Osa08LNT0419800.2

AGAGAATATCCGTATGCGCGTGGGTATGCCATACCGATATGCGACGTATATCGAAGGGTAAAGGGTATACCTAACTCGTAACCCTGACAATTTTAACATTTTGTTTGCACTGTTTAACCATTCGTCTTATTCAAAAAAATTTGAAATTATTATTGTTTTTGGACTTACTTTATTATCCAAAGTATTTTAAGCATAACTTTTTGTTTTTTTATATTTGCACAATTTTTTTTAAATAAGATGAGTGGTCAAACAGTACAAGTAAAATGTCAAAATCCCTTATATTATGGGACGGAGGGAGTACATTACAGCATAATCAGTTTTCACTTCTTTAAAAGCCAGAGATGTCTAATTTTGGCACTGTTTTTGTGAATTGTGTGCCTCTGTGGCTTTACCCCTAGGACTATCCCGGTTGTTTCTGGTCATACAGAAGTACTAGAAGATTGTAACACACGCTAGTATGATATACACGGACCGTAACAAGGCCGTACCCACAAAATAGTGGATCATAAAACATGGGTTCAATTAAGTTTTTCTTGGGTTTCTAACATCTGATGATAGAAACGCAAACGTCATGGATGATCAAAACAATAACATTACGAGCCCTGAGGAGGAGGAATTGACGTTCGCCACCAGAAGCTAACAGAGAAACTAGTAGAGAGAGATCTAACGTAATGCCACCATTTTGGTGGAATGTAAAGCAGGTCACCTTCCTCCAATATGCCGTCCATGAATTCAACGTCTCCTGTCCTCGGGAACTCATTTACGTTAATGTTGTCAAGATCTACCTGACTAATATTGCTTAGCATAGTTTCTCTGTGAGGGTAAAGGTCATTGGAGATGGAAGCAGAATAGAGTCTAAAATATTTCCTGCCCAAGACCTGAGCAAAAAGGTTATGATACAGGTCATGATGCAATGGTGTAACCGTCCCTTCAGGGCCAAACCAGGCATTGAGCTTTTGGAGTTCCCCACCACCAGCGTTACAATATTCAGGAACCATTATGTCTTCACGGAGCTCTTTTATCTGGTCAAACAGTGGATGCTGCGCTAGATATGTCAAGTTTGCAGAACAATCAGATGACCACATCATCTCAAGAAACTGAGAAAATGTGATAAGCTCCTGTTTCCACTCACTAGACAAATATTTTTTTCCAACCTGAGACACCACTATTTATATCAGTGCACTGGGAACATCTATAAGAAAAGGGAAAATGATCAGTTCGAACACCATTCAACAAAGAAAGAAGTCCCAATTTATTTGAAGCAGAACTACACTAAGGACATAAAAATGTTTTTAAAAAAGATATGCTAAAGGACGTACGGAACACTTGAATAGACATGCATTTTGGTAGATCACATGAACAGATGCAAGAAGATAGTATGGAAGATAACCAGTTTTTAAAGGAGGATTTTTCAGGTCATGTTTTACATACTACAATACTAGATGGCACAAAAATGGTAAAACAGAAACTTGGCAAATTTCAAACCCTGCGAAAAAAGCAACAGAATTAAACCGATGATATACAATAGTAATCTATATTGTAAAACAAAGAAAATAAGCTTAGGAGATTATGCCAATTTCCAAATATAAAACATGTGAATCGATCTGTTTAGAAGATCCAGCTGTTGAGGATGCAGCTCCACACATATATGTAAGTTCATTCATTATCGGATTGTCCTATCCATCCAAAGTATGCCTTGACATTTTTGCAAGGACATGGTATGATTTGGATTTTGAAAGTTTGCATCAACTTTGAAGCACACTGGATGGATAGGATTTATAAGGCAGAATATGCTAGTTTCAACATGCAATTCAATTCCTCTATGCAGCACATCTCAAATTAACATCATATATAGGAATATAAGGTATCATAATGCAAGGATAAATATGAACAGAAAAGCTCTTACAATAATAAATACTTGTGAGACCTGTTGAATTGAGGTCAAGAGGGAGTACACAAACCACTTACTGGAAAGTCACCATTTTATCGATGAATAAGATTAAAAACAGTCCTTCAGTATCACCTTATTTATTTATGAACAGCATAACTACTAATTCATTTTTTCCCCAAAAAATGCAAATTGTTCTTTCATAATTGAGGAGTGGAATAACAACACTTTATAACGGTAAATTGATGCATAAAACATAAGTATACCTCAACAGGAACAGTCCGATCTCCTGCAATCCTCTCTAGGTATCTTATGTCCTTCCACTTTGTCCGTGCAGGCCAGTGATCGATGTAGCCACTGAGTATAACAGGGGACTCACATAAAAAGTAATCACGTATAAATGCCTCCAAAGAAATGCATGATCGCCTCTCGATTTGCTTACAAGATAAGGACTTCACTGGCAGAACTTTGAGCACCTTACATTACGAATGGAGGGAGTAATTCATAACTTTTTTTTTCAACCATTAGTTGAGTGCACCCAGATGTCTGGAACCTGTGCATCACTCATGCCACTTAAAATGGCAAATCCTTAAAAATTCGGTACCTCCTCAATTTGCTGGGTGACAAAACATTGCATGTGCGTGTCCTTAAACTCTGTATCTCCTCTATCTGGTAGCTGTACTCCTATCTCATGGAAATTAATACAACTTTCAAAATAAATCCAGGTCTTAGGCCCTGTTTAGATCCCATCGGCGAGGTCTCGTTTCCTGGTTAGGCCTTCCATCCATTTCTCAACATCAGCTCCGTTCTCTCCGGCGCCGTCGCCACCACCGCCACCGCAGCCGCGGCTACGGTCGGCGACCACCCGCGCGATGGCTTCCTCCAGCTCGGCGCGGAGGAGGTCGCCACCCATGATGAGGCCCATGTCGAGCGCCCGGAGCGCGGCGCGTCGGCCGTCGCCGCCGCCGCCGGCAACGCGGAGCGCGGCCACGTGGAGGCACGCGAGCGCGTAGGCGTCCCTCCACGCGCGCCCGACCTCGCTCCGCGGGCACGCGTGCAGCTGCTCCCACGCCATCTCCCGCGCCGCCTCCGCCGCGCGGAGGTCCCCGTCGGCCGCCGCCTTCTCCGCCGACGCCACGAACGCGAACCCGCCTTCCTCCGTGATCTCCCTCAGCAGCGCCGCCCGCTTCTCCCCGCCCTCCGCCGCCGCCGCCGCCCGCGGCTCGCCGCCGGTGGCCATCGGAGCGGGTAGAAAAAGCGCAAAAGAGGAGGAGATATTTTCGGGGGTGATGAGGTGGTCGGTTGCGTAGGCGAGGCTCGAGCTCGAGTCGAGGGTGGTGAGATATTTATGGTGCGAGATATTTTCTCGCGGAAGATCATTCTGGAATGTTCCGGAAAAGAGTGAGAGTGTGCTCCTGGATGGAGGAGCTTGGGTGGTGGTCGGTGTCGGCGTGGAGCCATTTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.879578
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0419800.2 8 25196981 C A
Osa08LNT0419800.2 8 25197006 T C
Osa08LNT0419800.2 8 25197957 A G
Osa08LNT0419800.2 8 25198279 G A
Osa08LNT0419800.2 8 25198500 A C
Osa08LNT0419800.2 8 25199348 A G
Osa08LNT0419800.2 8 25200939 C T
Osa08LNT0419800.2 8 25200962 A C
Osa08LNT0419800.2 8 25201299 T C
Osa08LNT0419800.2 8 25201384 G A
Osa08LNT0419800.2 8 25201633 A G
Osa08LNT0419800.2 8 25201745 T C
Osa08LNT0419800.2 8 25202658 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
Osa08LNT0419800.2 osa-miR5799 Translation 4.5 8.138 1 24
Osa08LNT0419800.2 osa-miR5817 Cleavage 5.0 15.295 1 24
Osa08LNT0419800.2 osa-miR5830 Cleavage 4.0 12.349 1 24
Osa08LNT0419800.2 osa-miR812a Cleavage 3.5 8.31 1 22
Osa08LNT0419800.2 osa-miR812b Cleavage 3.5 8.31 1 22
Osa08LNT0419800.2 osa-miR812c Cleavage 3.5 8.31 1 22
Osa08LNT0419800.2 osa-miR812d Cleavage 3.5 8.31 1 22
Osa08LNT0419800.2 osa-miR812e Cleavage 3.5 8.31 1 22
Osa08LNT0419800.2 osa-miR815a Translation 4.0 18.365 1 21
Osa08LNT0419800.2 osa-miR815b Translation 4.0 18.365 1 21
Osa08LNT0419800.2 osa-miR815c Translation 4.0 18.365 1 21
Osa08LNT0419800.2 osa-miR2932 Translation 5.0 20.9 1 19
Osa08LNT0419800.2 osa-miR5152-5p Translation 5.0 12.682 1 21
Osa08LNT0419800.2 osa-miR5486 Cleavage 4.5 13.97 1 21
Osa08LNT0419800.2 osa-miR5502 Translation 5.0 15.013 1 22
Osa08LNT0419800.2 osa-miR6252 Cleavage 5.0 9.237 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0419800.2 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0419800.2 8 dth8 Physiological trait Flowering RG333 RZ66
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