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

>Osa05LNT0294000.1

GACAGTGTTAAACATCTAGCTAATTTAATAGCATATAAACACGGTTACCGTGAACATGTATGGTATGGAAGCCACCCACGATAACAATCAGGTACCAAATATTCATTACATAAGGTTTAAAGGGAGACTATGCAAAACTGAACAAGTGCGAGACATCAGGCCAGTGCTGTACAATGAGACTGCATTACCTTCGCTCAACCTATTCTTTCCTGCAAGAAACCGGTTTGAAATGCCACCTCATTTCTGGGATAAAGGAGAAACAATCTACCTTCATGGATTTTTCTCCATAAAGAGAAGTAGAGATCACATATCTGAAATGGGCATAACTCAATTTATCATGACATAATGAAAGTAGCACTTAGGCTAATAGAGCATGTGCATACTGAATTCATGTATCACACTGAAAGAGATACTGGCAGAATATGGAGGAATAAATTATTTATAGTTGGTAGAACCAATAGAAAAATCTCTTCAGGGAAGTAGCAACATCAAGCTAGAAAAATCTCTTCAGGGAAGTAGCAACATCAAGTTTAAGTAAATATCTATTCATCCTACTCACTAATTGGTGAGTTCAAATAGTAGACCTGAAGGATATCAAAATACAATGCACCAAAGCAATTACCTAAGAGTATGGAAAATGCCCCTTGTTTTGCTATGGCTGAAATTGAGAAATCTGCACAGGGTGGCCTCTACAAAAATTAAGCTTAAATGCAATGCAAGATGCATAAGTATTATACACACAATTTCGCTCAACCACAGAATAGAAATCAAGCAGAACATGAATATATGGTATATGGCTCAGGGGAGCTTGAACAAAATTGGCATTTTACATCTGATGGTGCAAATATTATCTTGTAAAAAAAATCTTGTATAAAAAATAAGTACAAATAGCTAATTAGGTTGTCTGGTTTAAAAAGAATTAAAATAGTAATAGGAGGATATCTAGTATAGAAGCCTGGTGAAGGAGATGTAACAATATATCACTGTAATACCTTCAAAGGCCTCGATAAAAATAATTGTACACAGCACCCAACAAAAAATCCTTGTGTGTCATGATAGCATACTCTGCATGGAGATTGAAGAGCACATCAATACATATGCATTTGCAGAAACATGGAAAGCAGCAGCACATACAGATTAAATCATAAAAGTTAGCAGGTCAGGATAACCATATGAAGAATCTCCAAAAGGACCTTTTGAAAAAAGAGATGATAGATTATAGAATTAGCATATGCAATCAGTGGATGGAAATGATCCTCCCAACACATCATTGAATGTTCTGTATTTTCATATTACATTTTTAGCCTAGTTATTCCAATTGTCTAGTTTCTTGGATTGGGTAATTATATCCTTAATGCTTTGCTCTTGTTGTGATTTACTAATTAGGAGTTGGAAATATATTAATTCTCATTACATAAAGAAAATGAAAAGGCGTTCCCAAATACCAACATCAGTCCTCCTACCTTGATAGGAGAGGTAAAAGCACAAAAAATGGCTTGAGCTACATTTTACATATGGTACTGATTACTCAAAAACGACAAACACAACTAATTAGTATCATATATAATCTATAAGTTTAGGAAACATCAATTTCTCAAATTACTGAATGGTGTGTATCCCTCAAGCTCCAGTGGTCTGAATCCCTACTGGATGTCATCTAAAAAAATGTAACTCCTGCCAAGCAAAGAAAATATAGATTGAGGGACTCCTGCTTGCAAATCTATGGACGTTAAACAAAATAAGCAGCCCATTTAGTTTATTCCATTAACTCCTTTATCTTGGATTACTATTTAAATCAAAGAGGCAATAGATACGTGGAAATAATGCTTGCTAATAAAATTATTGCTCTACTTGGAAGGTTTGGGTGTGTCTAGGGAGAACTTCATTTTTTGGCTTTGTAGAGATGAAACAACATAAGTACATAATAGATTCACAGTTGACTGATAGCATCTTACCCATCGCAATTATCAAGTAGTGAAGGTGCACTGTTAAATTGAAGCTATCGTCCTAGGCATAACAATGTAAATATGAGAGAGGAAAAAAGGTACACGATGAATTTGAAGTCATCATATTTGAAGGATATCTCAGGAAATGTGCTAGGATCAGAAGAAAACAATCATGAACACATTCACTGCATAGTAGTTTAGCAGTGAAAGTGCATACATCGTTGAATAAAAATGCTTCCTGAATTGAGAGAAAAATTTCATGACCAAATCAAGGTAATACATAGCATAACTTGGCTTCAATGTGATATGAGTATACTGCAAGCAACTAAGAGATAACAAAAACAAACTTTGTGTTGGCCTATAATACCTGCAATAATCATCTTTAAGTGCTTTAGAACTGAACCATTTGGGTCAAAATATTATATAGTTAATAGCTGCCATATCTTTTATGGCCTGACTCTTATATAACTGAACGTGATGAGAAATCTAAAATTAAGTGACAACAGTGTGCAGTTTTGAGTGCTTAACCAATAATGCATACCGACGGGCTAAGTCCATCAAGCATTTCATCAAGTATATGACATACACAAACATATAAAGTAGACGAGCGTCTGATTAATTTACCTTCTATTTCAAAGAGTTGTAGGCAATAAATTTGAAACAATGATCGAGATCAACCATCTTACCTTGGTTCTATTAAACTGAGCTGCTCACAAAGTCACTGTACCATATATATCAAAACACAGCTGCATACGTGAGGCAATGGAGTAGAAGGTGCATCGAAGCTCATGGCATGGATTTAGCTTGTAAGCCGATTCTGAAGCCAATTAGGAACCTGCAGGAAAAGAAGATTAGCCTCCATGCCATCATGACTTGAGCTATAGGAAGACAGGCAAGTGCTTCCCTTCCTGCCACCACAGCCGGAGGACAGCAAGCTGAGGTTGAGCAGGCACACAAACAACCAATATTTGCATAACTTGCACAGATCGATTCATTGTTGAAGGACTTAAAACTTAAGTTTACGCGCTGCACCCTGCCGCCTCACCTCGTCCGCCATGCCCGCTGAGCTCGGGAGACCATGTCGAGCCGACATGAGCTCGTCTGCTCGTGGGACGACGACCTTCCCCGCCGACGTGATTGCAAGGAGAAAGTGAAGTAATGGGGCAGGCAGATCCGGGGCGGAGCAGCACCAAGACACCAAGGGGCCCGACCCCCTCCGGATTAGTTCGCTCCAACAGCCGTGCCTCGGCGAGCTCGCCGTCCGGCCATCATCCCCTCGTTGGCTTCCGCCCTCGGGCGAACTCTCCTCCTCCCCTCTCGCGCTGCCCGCGGCGGGCGAGCTCTCCTCCCCCCCTCTCGCGCTGCCCGCGGCGGTCGCCGAAGGATACGGTGGAGCACGGCGGCGGTGAAGAGGACCAGAAAATGACCAGGGGAAAAGGGGATCGACGCGCGCGGGCGAAGAAAACCCTAGGCGCTACACGGTGGCGGCGAGGAGAAGCAGCGCAAAAGGAGTCGATGGGGGAGAAGAAACC

Coding Potentia
Explanation CPC Score
noncoding -1.23692
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0294000.1 5 2748601 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
Osa05LNT0294000.1 osa-miR5822 Cleavage 3.5 21.597 1 21
Osa05LNT0294000.1 osa-miR6253 Cleavage 4.0 13.477 1 22
Osa05LNT0294000.1 osa-miR395a Cleavage 4.5 17.86 1 21
Osa05LNT0294000.1 osa-miR415 Translation 5.0 14.579 1 21
Osa05LNT0294000.1 osa-miR417 Cleavage 4.0 17.456 1 21
Osa05LNT0294000.1 osa-miR418 Cleavage 4.5 14.054 1 21
Osa05LNT0294000.1 osa-miR395o Translation 3.5 16.198 1 21
Osa05LNT0294000.1 osa-miR395o Cleavage 4.5 17.86 1 21
Osa05LNT0294000.1 osa-miR395w Cleavage 3.5 17.86 1 22
Osa05LNT0294000.1 osa-miR395w Translation 4.0 16.198 1 22
Osa05LNT0294000.1 osa-miR1852 Cleavage 3.0 16.843 1 21
Osa05LNT0294000.1 osa-miR5147 Translation 4.0 11.141 1 21
Osa05LNT0294000.1 osa-miR5491 Translation 5.0 14.964 1 21
Osa05LNT0294000.1 osa-miR5524 Cleavage 5.0 18.387 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0294000.1 5 nan Morphological trait Root RZ556 RG313
Osa05LNT0294000.1 5 CORN5 Physiological trait Source activity C597 R1838
Osa05LNT0294000.1 5 nan Resistance or Tolerance Drought tolerance RG313 RZ556
Osa05LNT0294000.1 5 Ph5-1 Morphological trait Dwarf RG313 RZ556
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