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

>Osa03LNT0233000.1

GCACAGAACAATCACATGCTACAATGGATGATAATGAAGGGAAGTCCAGACATAAGGCATCAACTGATACACATTATGCAGCCAGCGCACACACTACACGTAATGTCAGGTAACTCCGATGGCATACTACAAGACAAAGCGTACATAATAACATGAAGGAGTTAACAGAGTACGATACAGCACATTACACCCTAGGAAGATAAGCTCGGATCTCAATCAGTTCATAGTCCCTGCCTAAAATACGGATAGGATGCTGTTGCTTCACAAGAGGAAGGGGGGGAGGGGGGGGGATCACGGCGAGCCTATGGTGCATCCACCTTGACAAGCGTGGTACTCGGCGCCTCCGGGGTAGCTGGTAAATACTGAAGCCAGTCTTTGGCGCAGACGAGCGCCTCCACAATTTCTGGACGCAATGAGCTTCTGTAGTCATCAAGCATGCGAGTTCCTGTTCCAGCAGAGAAAATAGAGTTGCCGCTGCTCACCATCGACATCGGAATGGCCAAGATATCCCGGGCCATCCTTGAGAGAGTAGGGAACTTGAGAGTGTTGAGCTTCCACCAGTTCAGAATGTCAAATTCCTGGATGCGCGGAGTGAGGGACTCATCCAGGTACTGTTCCAGTTCAGATTTTGTTGGCTGGCTTGTAGCTATCTCAGAAAGGTACATATCAAAGTCCACAAGTCCATCGCCGGTCGAAGGAGCAGTTGCTTGAGTACCATTCTCGCTAGCAGGTGCATTATTACCGTCCCCTTGCTCAACATAAGCCGGCGTCAAGGGGAGGGGTTGTGCAACATACTCCTTGTAAAGCTCATGAACAGCATCATCCACCACCTTAACATACTTTGCAGCTTCAACACCATAAATTTTCGAGTAGCTGAACTCAACAAGCTTCATCTTGAAGCGCGGATCCATCACAACAGCAATAGCTAACACAAGGTTGCAATCTTTCCAGTACTTGTCAAACCTCTCGTGCATATCCTTGGCAATGCTGCTGAAAACAGGGTCTTCATGCCCTGTGGCATTTGACAGCTCGAGCTGAAGTTTCCATGCCTCATGGAAAAAGAGATTTGAAGTTGGATTTGCTGCAGCCATGATGCTATGTGCTGAGTCATACAATAGCTTCAAGTAATTGCAGGCAGCCTCAACTTTTTTCCAGTCCTCAGCGGACGGTGCCTCATTGTAGTTATCATCACTTGTCTCAAGAGTAGAAAAGGCCTGCTTATAATCCAAGGCAGCCAGCAGCATGAGATAGGTAGTGTTCCACTGTGTCGTAACATCCAGACAAAGGGTCTTGGTACTTGGGATCTCTAGCTGCAGAGCAATCTCTGCAAACTTCTCCTCACGGCTAGGAGAAGCTTTTATGAACTTAATGCTTTCACGGATATTATAGATGACACCATGAATTGAAGCAATAACATCCTGAGCAACTGCATTCAGGATATGGGCATAACACCTTACAACAAACAGTTGGCCCTTGAGCATGAGGTTGTTCTTGTTGGAGAGATAATCCCTCAGATTCGCACTATATATATCATGTGATGAGCAATCATTGTCCAATGTGATGGTGAATAGTTTGTCCTTCATATTCCAGTCTGAAAGGCTTGTACTAATAGCTTCACTAAGTGCATTCTCTGAATGAGGAGAAGACACCATCATGAAGTTTAGCATTCTTCGATGTATCTTCCACTCAGAGTCAATAAACTGCCCAGCAAGTGAAACATAGCCAAGAGTTTGGCTAGTTGTCCACAATCCAATAGTGAGGCTAATCCTTCCAGGCATAGTGCTGAATGCTTGCATGAGGTTTTCCTTTTCTTTCTGGTAAACAGCATACACCTCCCCCTCCATTGTCTCAACATCTACAACCCTGAAACGTGGCTGCAGACTGTCAATAAAGGTAGTGAAGGCTGGCTGTTGAACAATGTGAAGTGGATAGTCATGCAAAATGATCATCTTCGCCAGATATGAACAACTGCGGTCTTGATCAAAAGCAGCATTTGCATAACCAGTATATCTGTAACGCCTCTTAGACGGGCGCTCCACAGTGCCCTCGCCATCATTGTCAGTCCCTACAGCTGGAGTCAGTGCTAGCTTGTGCTCTTGGTTCTTAATTATAGGACATGAACCCAAGGTAATGTGCCTCTTGAGATGGCTAGTACCCGCAATTTTTGAACCAGAGCTGTAAGCAAAAGTTTGCTTACACAGTTTGCAGCACGCCCGTGTAGCCCCTCCAGAGACAGCTTCAATAGTGAAGTGCTCCCACACTAGAGACTTCTTCCTACGGCGCCTTGATGTTGGAGGGGTACTCATCTCAGCACTGACCAATCCATTTACTTGGACCTCGTCACCTTGAGCTAAGTCCTCCGCAAGGACCAATTCATCACCCTGAACTTCCTCAGCATGAGCTTCCTCATTGCTTGGGACAATCTCATAACCTTGAACCATCTGGAAGTCGTTGCCAGTTTCCTCAGTCATGCTTCTTGGCTAGTAGCTAGAACTCACAAAATACGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGAGGGATGGTGGTGGCAGATCCGCGCGCGGGCGGGGCTCGCTCGCTAGGGCTCGGCCCAAGAAGCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.07777
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0233000.1 3 30041226 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
Osa03LNT0233000.1 osa-miR812t Cleavage 5.0 20.031 1 24
Osa03LNT0233000.1 osa-miR812u Cleavage 5.0 20.031 1 24
Osa03LNT0233000.1 osa-miR5812 Cleavage 4.0 15.558 1 24
Osa03LNT0233000.1 osa-miR5179 Cleavage 4.0 17.038 1 21
Osa03LNT0233000.1 osa-miR5837.2 Cleavage 4.5 18.808 1 21
Osa03LNT0233000.1 osa-miR6254 Translation 4.5 15.494 1 21
Osa03LNT0233000.1 osa-miR160f-3p Cleavage 5.0 16.509 1 21
Osa03LNT0233000.1 osa-miR408-3p Cleavage 5.0 24.758 1 21
Osa03LNT0233000.1 osa-miR390-3p Cleavage 5.0 21.124 1 20
Osa03LNT0233000.1 osa-miR2099-5p Translation 4.5 14.706 1 22
Osa03LNT0233000.1 osa-miR812n-3p Cleavage 5.0 20.031 1 24
Osa03LNT0233000.1 osa-miR812o-5p Translation 4.5 15.824 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0233000.1 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
Osa03LNT0233000.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0233000.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
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