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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa12LNT0135000.1

CGCCTGACAACATACCAAAACATTTGCATTGTTTCTGCAGAGAAAAATACTTTTCTTGACAAAACGGGGTGGTCTCTGATAGCTTTGAACTAGTTTTCTTTTGCAGATTTTTTCCCCTTCTGTTTCTGCTTCTGCTTCAGTTGAGTGAGGCCAGGTGCGGTGATCTTGGCATTCCCTACAATGGCAGCAACCAATTCAGGGTCCGTGCATGCCTTCATTAGCTCCTTCTCACGGTTTGTGGCGTCAGCAGTGTGCAGGAACAAACTCATTGCAGTTTTGGCAGCTTTTCCTTTCTTTGCAGTTCCCGGGGTAATCTTCACACGATATTTGTATGCCTGCAATGCGTTGTAAGGGGCACAAACTGGTACAGCATATAGCAAAATATCACTTGGCAGTGGATTTCCAGTTAGGTAGTCCAAATCAATTAACTTCTCTTTCTCTTCATCACCGAGCTCATGGATGTCATCTTCATCCATGGTAACGCTGCTACCAGCAGGGGCGCTGCTTCTATCCATACCATCTTTGGCTCTACCAACATTGACATCAGCAGGATCCACCTCAGATGTACTTTCAGGGCAATCACGAGAAAGATGTCCAGATTTTTTGCATTTATAACAAATTTTTGATCTGAAATGTGGAAAGTACCAGTCGATGGTTTTGATTGAGCTGCAGTGGCTCCATCTACATCTTCTGAAGGTTTATCCTTTTGTGAGGCCCTTCCAGAGGACGCAAGTAAAGCCATCCGGATTTCTCTTTCTTCTTCATCCTGCTCTCCATACTTCTCTTTAATCTTCTTAAGCTTGCCCTTCTGTCCACGACTTACTTTAGGATTAGCAGGCTTTTCGATTGTCTTTCCTTTTTCTTGCTGTGAGTTAACAGGCTTTTTGGCAGCTTCACCATTTGGAGAGTCACTGGTAGAATCACCAACATTCTGACCTTTCTTCAGTTTTCTTCTATCTGCTTTAGATATGTATGGTTTATCTCTTACTGATGTTTTCTTCGTATCAAGATCATCAATGTCATCTGCCACGCTTGCAGAATTACTGCTGAGCAAAGAGCTTCTGCCTAACACCTTAGTTGGCCCAAGACCAAGATTCTTATCAAGCAGATCCTCAAGTTGTGATGAAACAGTGCGATCACTTGTTTGTCCCTTGGAAGTGGAAGTAGTGCTGTTTACCACAGTTCGGATTTCAGAAAGCTGCTCAGATGAATCAGCATTATCCTTAACATAAGGTGCATTAGAAGGGATGGGATTGTCAATTTTTTTAACATTGATATTATCCAAGCTTGATTCATCATCATGTTTCTCCTTGCCAGTCTCACTATCACTGTCAAGTTCACCATCCAATTCAGCATTACTTTCCAGCTTCTGAGACTCAACATCAGGAAGGGCCTCCTCGTCTTCACCCCTGACCCTCCTTTCATTTAGATGAGATGCCAAGGAGCTCTCATCCAAACGGAATAGAATACCAAATCCCATAACAAGGGGGTGAGGTGGGAGAAAATTTTTCTTGCCACGGATCATAAAACTACCCACTGTTAGGTACTCGCCAGTGGGAGCTGTTTTGCTAACTTGATAAGGATACACCCACCAAGCACTGGTAACAATTTTTGAATCCCATGCTTTGCTGTGGCAAACAGTGAAAGATCCTGCTTGGTTTAATGTCAATGGTGGAATGGGATTATCAGGTTTGTGATTCTTGATGATTGTACTGGAAGCTCCATGTAACTCAGCATGCACGTAGCTATCCAAAGATGCAAAGTAAACAAGCAACTTCCGTGAGAACCTCAAGGAACTAGATACAAATATGATGACTGAATTATGAAACTTAAAGAGCCATAACAACGGAGGTTATGTTTCCTATGATCAACTGCAAAAATACCACTGATAGAAGATGTACAGTCTGCATCAACAATAAGCTTTACAGCCATTACCAAAGATGTTGATGCAATTGTTTGCAATAGACTCTGGATGAAAAGGGTACTTACAGATCTCCTTTCGACATGTACCGCTTGACAATCAACTCATTTTGTTGAGCATCGCGGCCACTAATAATCAGGTAATTTTCACTGCTGATGAACCAATTGAACTTCTCAAACCAGTGAACTTTGCGCATATGAGTGATTGCAGCGACAGTTTT

Coding Potentia
Explanation CPC Score
noncoding -1.11072
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0135000.1 12 23158661 T A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa12LNT0135000.1 osa-miR5797 Cleavage 5.0 12.872 1 21
Osa12LNT0135000.1 osa-miR166a-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166b-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166c-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166d-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166e-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166f Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166g-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166h-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166m Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR166j-3p Cleavage 5.0 21.843 1 21
Osa12LNT0135000.1 osa-miR417 Cleavage 4.0 19.932 1 21
Osa12LNT0135000.1 osa-miR418 Cleavage 4.0 18.0 1 21
Osa12LNT0135000.1 osa-miR443 Translation 4.5 20.572 1 22
Osa12LNT0135000.1 osa-miR1426 Cleavage 5.0 17.836 1 21
Osa12LNT0135000.1 osa-miR2098-3p Cleavage 4.0 18.453 1 20
Osa12LNT0135000.1 osa-miR5151 Translation 5.0 11.14 1 22
Osa12LNT0135000.1 osa-miR5152-5p Cleavage 5.0 13.359 1 21
Osa12LNT0135000.1 osa-miR5152-5p Translation 5.0 24.939 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0135000.1 12 Bph18(t) Resistance or Tolerance Insect resistance RM463 S15552
Osa12LNT0135000.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0135000.1 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