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

>Osa12LNT0132400.1

AACCTCTTCTACTGCAAAGGTAGCTAAAGCACAGACTAGCAGATTTGCAAATGTTTCACCAGAACGCAAGGCCACCAGGCCGGTAATCCTCATTCAGAGGAGAATCTGTGGATACTACTGTTTCATACTTTCATATATAAGAGAAGCACATACCTCACCCCTTCTACAAAAATAGTGCAATTACAGCTAATAGATTTTAGAGTTGAAAAGGCTGAGAAAGTTCACCAAATGCTACTCCTACAAGCTAGAACCTAAATAAACTCCTGAAGCCTACCAACCAACCTAACGTGCGGCACAGAAAACAAATATGTATATGCATCGCGTCAAAATGGAGCTTCACATTTGCCAGTAGGCAGAGGGCATCCCAGGCTGCAGTGCCAGATGAAAGTGTCTTTTGCACATCCTCTCATTTTGCCCACATCTTGGACATGGAAACAACAAATGCCCTAATGATTAGCCAAAACAGGTTGGTCTCTTTCTTCGGCTGCACCTTCCCAGTTTTCCTGCTGATGGCAGTTGTGGTGCTGTCTCCATGTTCAGGCTTGCTATCATGCTCTTCCATTGTTATGATAGATATAGATTGCTTGAGTTCACTGTTATCTTCCTCCACCATGCCATTCTTGCCTTCAACGTGTGAGAACACCTTTGTATCCAGTTCTGCATGAGAAACAAGATTTTCTGCCTTTTCTTCCTCATCAGGATGCAACCTCTGTACTTCAGACACTTCAATAGACTTGGTTGTGTCTTCACTTGTATTTGAGTTGAAAGTATCCACTCTAGAATTGGACTGACTGTCAATGGTTTGAACATCATTGCTCATGACACTTTCAGGTCGTGTCTCATGTTCCTGCAAAATGGTCTCATTTGCTTGAGAACTTCCATTAGTCTGTAAGCAAAGAACAGCTTCATCAACAGCATTATCAGTTGTGTCATCATGATCTTGTAAAAGCGACTCATTTGTAATAACAGCACTGGGTCCTGAGGAAATAACTCCATTAGTGAGACTGCTGGTTGTCTCATGAGCAACCACCCGACTGTCCATCTCAAATTCACTTTCTGAATCAGGGGCATGAGAGAAGGAAGGAGGTAGCTTTTCAGAACTACTGGGGTCAATTTCTGCTGATTGCGCACATGGAACTTCATCTTGTTTCTCGCTGTTTGTCTCTAAGCATGCCATATCTGCTATGTTCCCATTTTGGAGTGCACCATTCAGAATACCAGCATCCAATAGATTAGATGACCCCAGTAGTTGCTGGGTGCTCATGTCTGTCACAGTATCCATGCCAGCTTGGTTGTCATCAGACATATCTAATATCTCGACACTGTCTTGGCCCAGTTCATGCGTAACAGGTGACTCCACAGAATCAGGGCAGTCTTCAAAACTCAGTGCCGTGGCATTCAAGCCGCCAGGGCCCAGAACCCTGTTCTCTTGGATGATATCTCTCACGATTTCACGAACTATGTAATATGACCCTCCGACTTCCTTATGCGTGAGATTGACTGAAGGGAATTTCCCATCATTTGAAACCCGGTAAGTGTTGACGAAGGACTCGACCATCTCCCGCCTCTCCTCCTTGGTCTTCCTCACCCGCGGCTTCTTCTCCTGCACGCAGCACCGCACCACCCCGAACCCCTTCGCCCTACCACCGACCGCCGCACCGCCATCCCACGACGGCCGCCGCACCACCACCACCCCTCCTCCGCCCCCGCCGCAGCCGAGCACGGACGCCTGCGCGACCCAAGAACCGCTCCCCGTGGCCTGCATCCTCCTCCTCCTCCTCCTCCAGCCACCAAGAGGAGGGCGGCGCGCGGCAAGGGTGGCGATGGAGGCTGGGGGAGAGGAGGAAATGGCGACAAGATTGGGGGTTTTGGAGGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.93407
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0132400.1 12 20817224 T C
Osa12LNT0132400.1 12 20816875 A C
Osa12LNT0132400.1 12 20816924 C T
Osa12LNT0132400.1 12 20817342 G A
Osa12LNT0132400.1 12 20817832 A G
Osa12LNT0132400.1 12 20819072 T C
Osa12LNT0132400.1 12 20819271 G A
Osa12LNT0132400.1 12 20819419 T C
Osa12LNT0132400.1 12 20820138 C T
Osa12LNT0132400.1 12 20820608 A C
Osa12LNT0132400.1 12 20818737 T C
Osa12LNT0132400.1 12 20818472 C G
Osa12LNT0132400.1 12 20819078 A 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
Osa12LNT0132400.1 osa-miR1849 Translation 5.0 11.775 1 21
Osa12LNT0132400.1 osa-miR2874 Cleavage 4.0 16.394 1 24
Osa12LNT0132400.1 osa-miR395x Cleavage 4.0 17.778 1 21
Osa12LNT0132400.1 osa-miR5076 Cleavage 2.5 13.84 1 22
Osa12LNT0132400.1 osa-miR5509 Cleavage 4.5 20.212 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0132400.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0132400.1 12 nan Morphological trait Seed RG543 RG81
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