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

>Osa06LNT0363000.1

ACAAGGCGGATAGTGATAGATAGGTTCATTACATATAGATAAATTTACAGGCAGCAGTCTGTAAAGGAGCAGATATATAGATGTTGTCTCATATGTACAAACAAACGCAGCATGGACGACAAGCAGTTTAGTAAAATCCATTTGTCTTGTTTCGCTGCAAGCAGTTCAGTAAAAGCTTCTGTTTGTGCAACCCATGGACGACAAGCAGTTTAGTAAAATCCATTTGTCTTGTTTCGCTGCAAGCAGTTTAGTAAATCCAGGAAGGGCTTCTGTTTGTGCAACCCTTGGAACATTCAGAGCGAATTTGATGAGGGGTTTCTTTTCAGAAACAACAGTTTTAGATCTCGCAGTAGAACTCATCACATTTGCTTTGTTATTCTTGGGTAAGCAACCTGGATGAAAATATCAGCACCTAGTAGCAACAACCTTGGTTCGTAACCCAATATGCGAAGAAATATTTTTCAGGAGATGGTCAAAACAGCACAAAAAAAGCTCAAGATAATTTTGCAGATACTCTGCTAATCAATTATATTTGCTGATTAGCTTCATCCTTACCAGACAATATCCAATGAAAAATGCCTTCAGCTGAGTTTTTAGGAACACATAGGTCGTGTTGCTCTCCCATGGCATATAGATGTCGTGAGTATTACTTTGCTATTAGTGTTAAGGAGACACACCATACGAGGTTCACATATGATGATAGTTTTTCAAGCAAACTTTGGAGGTAATGGGGAAGGAGTGAGCTGAAGACAATAGAGGGAACATAAAAGGAGTTCCTGACGTGAATCTCAATAGTTGATTCTCAAATGGATAGATTTGAGGACAAAAATTTTGACCAAAGTCAGACACAGGTGGAGGTTCTTGTGGAACAGATTGCATAGAGGGCTGTGTCAATGTGCATGGTGGCGGAGAAAATGTGTCCCTCAGAAAGAGTCCGCCGATCTTTATGCAAGAAAAGTTTCTTGAAATCTCCCCATCAGGAACACTTGCCTTCAACAAATTTAAAAACGATTGTCATGGCATCAGTACAATAAGAAAGCACATTTGTTAATTCAGCCTCTGGAGTAAAAAAACACATCGTGTCACATATCTAAGTGACCAAGTGATAATTTCCAATCCTTGACTCAATTTCCATTATCCAACTAATCGACCATGATGTTTGAATAAATATGAATATTGTTATAACAACACCTTCTCATGAATCAACAAAATATTAGAAAATATTGTAACAAAATACCGCAGCTAAGAACATTCTCAATATTTATTGAGATCTCCAAAAAGTAGATAGATATAAATTACCATGGAATAAATGCAGCATTTCCACCAAATTTGATTTCTGTCATTTTAACGTAAAAAAGAACAAAGGAACACATCTTATAGAAATAGAAACTATGCCAAGTCAGTGAGCAGATAATTGCATTCCTATAGTACCTATATGATTTCATTTACACAAACAAAAACCAAATCATGGAAGTATATATTGTCAACCATTGATAACCATGCAGAACATAAGTGTATTTTGTTTAATGGCTCAGTCTGAATGCTTTTCAAACAGCTAAACAGTGCATATTCTGCAAAAAAGAATAATCTATATAGAAGTAGCTTAAAAAGTCAAATCAATCCATTTTCAAGTTTATAATAGGTAATCCTTAATTAATCATGTGCTAATGAGCTTTCTCGTTTCGTGTGCGCTGCAAATCTCAATCGAACGCAATAGAATTTGGAACAAAGGCAACCTCGGAATGATTGATCTCCAAAATATAGCAGCCTGACACTACACACACCGACTTATTAATTTGGCATACCTAAATATCTATTAGCAACCACAATATTCATTATAATGGTACTATCCCTTTGAAATAGCTAGCTTTGTACATCATTGATGCATTCTTGTAATGATCTGCAACGTCATCTACTTATATCTTTCATGATAGATGCATGAAGAATCCTTTCACTACTTGAAACTTGAAAGAAGCTTATGGCTGGAAATGGCATGCTCTGCATGAGTTTGTGGCCTCTTCAGCCCTTTATTCCAAAAGATCCTTTGTGGCCAGGTCCAAATAGAATGTATTAGTTACTTATAGGGCCTTTCTGCAATCATTCCTTAATACTTGCAATGAGCGTGGAAGATATGAAGCAGAACAATGTAGGATTGTTCTTAGTGGCAATGCAAAACGCTATAGGAATGGAAACATCTCTGCTACCACTCATGGTCACACTGTCAAGAATGGCAACCTCCTTCTAGGATAACATGAGGTAACCTGTCAAAACCTTCTGTAAATTGATCATCATCCTCTGAAACTGGACCAACTGCACATCCAATATTTTATTAAGTCCATGTCAATGACGAACAGACGAAGCCCTGCAGCCGCCGCCGAGCAGCACACTAAGGTCTTCATCCCCACATGCTGACTTGCTGTGGCAGTGCTGCTGGGTTACCTCACACACAATAGTCCCGTTTCTAAATTTGCAAGGCACGTCGCCCAAGACGACTTGAGGCAAGCAGCCATGCTCAATATCAGAAAACAGAGCTTGAGATGCCTTGCTGTACGGCCTCTTCTGTGGATCATCACCAATCAGAAACAGAAGCATTCCCTTTGCCTGGGTCACTAATTGAATACCCACCCAGAAACAGGTTCAGTGCAAAAGACGGCTCAAGATCTAAATCATCAGAACCAACTCCGTTTCTATCCGATACATCCAATCATGCAGCAGCGCCGGGCTGGTGCTTCGTGAGGCGGCGGCGGATGGCGCAGGTTTTCTTGGGGCGGAGGTCGAGTGGGAGGAGGCTCTTCTTCTTCTTCTTGTACGCCTCACGCAGCGCCGTCCTCTGCTTCTACGAGATCACCGTCAGCATGCGCGCGATCGATGTGCGCACCACCTTGATATTGGAGAGCTTGTTGGGGGCGCCGCCGGTGACCCTGGCGACGCGGAGGACGGAGAGTTCCGCCTTGAGGTCCTTGAGCTGGGCCTGCAGCTCCGCCTTGTTCCTCCCCCGAAGCACGTCGACCTTGATCCGGGCCATGGCGACGGTGACGGTGACGGCGGCGGCGGAGGCGGTGGCGCGGCGCACGAAGACGGAGGTGGACGCGGCGCCGGCGGAGGTGGTGGGCGCGGCCGCCGCGGCGGCGCGAGGGGGAGGCGGAGGCGGCGGCGAGTGGCGGCGACTGCGGGAGAGGGTGAGGGAGAGACGAAACGGAGAAGGGGGCGACCACCGCAGCGGTGGTGGGCGCGGCCGCGGCGGCGCGAGGGGGAAGCGGAGGCGGCGGCGCGTGGCGGCGACGGCGGGAGAGGGAGAGGGAGAGACGAAACGGGGTTTGGGGACGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.816513
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0363000.1 6 31218914 G A
Osa06LNT0363000.1 6 31219152 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0363000.1 osa-miR5542 Translation 4.5 16.032 1 21
Osa06LNT0363000.1 osa-miR5542 Translation 5.0 12.707 1 21
Osa06LNT0363000.1 osa-miR5816 Translation 5.0 16.861 1 24
Osa06LNT0363000.1 osa-miR419 Translation 4.5 10.113 1 21
Osa06LNT0363000.1 osa-miR2872 Cleavage 4.0 16.635 1 21
Osa06LNT0363000.1 osa-miR2872 Cleavage 5.0 18.52 1 21
Osa06LNT0363000.1 osa-miR1863c Cleavage 4.5 12.969 1 24
Osa06LNT0363000.1 osa-miR5083 Cleavage 5.0 10.512 1 20
Osa06LNT0363000.1 osa-miR5337a Cleavage 4.5 16.222 1 21
Osa06LNT0363000.1 osa-miR5494 Cleavage 3.5 13.037 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0363000.1 6 nan Morphological trait Root RM5814 RM3509
Osa06LNT0363000.1 6 nan Morphological trait Root RM5814 RM3509
Osa06LNT0363000.1 6 nan Morphological trait Root RM5814 RM3509
Osa06LNT0363000.1 6 nan Morphological trait Root RG653 RG433
Osa06LNT0363000.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
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