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

>Osa03LNT0234600.1

GGTACTGCTAAACGGTAAAACTGGTATTAGGGAGAGCGAAGGTTCCTAAAGGCATGTCCACGGATTACCGCGAGTTTCACGGTATTACTGGTTTAGTCCAAACCAGATGGGTTGGTAACAAACTCATACGACAGTACAACAAAGCAGGCACTCTCAGTTGGCAGTATCAGCAGGTAGCCCGAAATGCTCCTGAATGACTCCTGATGGCGTTTTCCCAAATCCATCAGCGATTCCCAGCATGACCTTGAGCTTCTCCTCTTCACTCTTCACTTGATCCACACGCTTCATAACATTGGTGATTAGTGTACTATATAGTGAACCATCATCATCAGCTAAGGGCATAGGGTCTGCAAGGACGGATCTTTCAGAATCAAGCTGACGATAAAGACTCAGGACATGATCCTTCTGGGAATAAAGCTTCTGCTCTGCCAGCTTGTACTCTGCTTCCTGAGATCTCTTCAGTTCTTTAAGAGCATGATCTATCGAATCTTCGAACCTGACAGACAGTGTGTGTTGATCCTCGGTAATGTAAGCTGGAAGATTTTCAACAGCCCTCTGCAAATCATTGTCAGCCAAATCAACATAATATGGAAACCCTGGAGGAGCATCCTCTTCTGGAGCTTGCTGGATCCCAAGCACTGTTACACCACCGGTAGCAGGGGAAACTTCTGCACTTGGAGTTGAGTTGATACCATTATCTTCCATTTTCCAAACTTCAGCAAGATCAACCCCACACTTTAGCTTTGCCATTGCTGATCTCATAATGCTCTCCAAGCTTTTTGCTCTTGTTTGTCTTGAACCACGCACTAGGCATAAGCCAGTATTCAGGATAGGTTCAATGTCATCCCTTGATTGAAGAGATTGGCATATTTCCAAGAATTTTTCTACGTGCAGCATCAAGTTCGTTTTGTTATCACAACGTCTGCAACAATACTGCATGTCCAAGTCAATACATCCTCCAACTGTTCCAGCCATAAAAGTACGGAGAGCACAATCAAGGTGCCCAATATGCCCACATATTTTGTTCTCTTCTAGGACTGCCTCACACTTAATGTAGCTATAACCTCCAAAGGAATAGTCAACAACCCTGCGGCAGAAAACACAGCAGCACTCTCGGCAGAAATCAGGCATTTTGCAGCAGAGGTCACAATCCTGTGCCGGAGATGATTCAATGAATCCCTCTCTCTCAAGTTTACACAAGTTATTCCTGGCCTTGCATGGTCCAGCTGGATCAGCTTGCCTTGCATAAGGACAAAAGACCCTCCTCACTTCTCCACCTCCTCTTTGGATACAGTGTCCTTTAGCAGGGATCTTCCAAATAAACATAGAAAAGAATGTGTTCGGATCCATATCTGGAAACTCTGTCTTGATAAATTCTTCAACCTTTAGTCTACTTGTGAATGATGTCTTTTTACCAGTAGCATCACGAAAACGTGAGGGCGGTGTAAGGTACCTATCAAGCCAGTGGCCAGTTGCAGAAGCCCTGTTTCCCACTTTCCAGCTCCATTGATCTCCAGGACATGGCCAGTTTTCGGGAGCATAGGGCATACCTGTACCACATGAATTACCTTCAACTGGCATAGCACCATTCTCACTTGTGAACTTTTCTGATAGATCCTGCTCCTCAGCTATGTTAATTTCTGTTACCGCCTCGCTAGGGACCTCGTTTTCATTCACCATTTCTTTCGAACTTTTGATAATAATGGGTGACACCAAAACATTTGTTGGTGTCCGTTGAGATTCCATGTCTTTCAAACTTTTGACAATGGGTGACACCAAACCATTTGTTGGTGTCCGTTGAGGTTTCTCCTTTGGTGGGTCTCTTCGCGCCTTTTTTGCCGGTGGACTCTTTGGGCTGCCAGAAGCTAGACATCTTTCTCTATCCTTACCGAATAGCTCTAGTAACCTATCGTAATGATCAATGGGCTTGTTGATCCATTTCCTGGCTTCCGGTTTCCTCTCGATGTACTCCCTCCAAACAGTTGGGTCAGCATAAAACTTCTTGTTCATCGCGCTCCACTTAAAGCCACTCTGGTTCTGGAAGAGGTTCTCGCATTCATGGAAGTTCTCCTTGATGGACTTGAGACGGTTCTTGATGTTTGACCTGTCGATGGCCACCCCGAACCTCTCGGCGACCCCGGAGATGATGCTATCGAAGGCCGCGGAGTGAAACCTCCCCTCGCCCCTGTTCCCGATCGCCTGCTGGTGCAGCAACGCGTCGATGAGATACTCGTTCATCTTCTCGGACCACACCACCGTCTCCCTGCCGCCCGGCCTGGGGCCTCCTCCCGCATTGCCGCCGCCGCTGCCGCTGCCGCTGCCGCTCGCGCCGGGGCTATACTTGCCTTTCTTCTTCACCATCTCCCCAGCCACAACGCCGCTCCCCCGCGAGCGCTCCGCCGCCGCCGCCTACACCGCACGGGCCGCAGCGGGCGCCGCGCAAACGAATTGACGAAATTGAATTGAACCCTCCACCCAATCCCCTCTCCTCGCCTTTGCTCCGAGCGATTGCGCGATCAAGCCATCTAGGGTTTACCTAACGAACGGATCCGAGATCAGCAATCGGCGAGACGAGGGGGGATGAGGAGGAAGGATTCAGGATTGGGTTGGTGCGATCTTACCAGCGAAGAAGCGTAGCGAGAGGTGGAGCAGCGTGGAGGAGGAGGAGGAGGGGAACGAACGAGCCAACGAACGCGACGCGAGAGAGAGAGAATGGGAGTAGCCGTATTCTCTCTCCGTTGGGTGGGGGTGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.946221
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0234600.1 3 30729358 T C
Osa03LNT0234600.1 3 30727110 T C
Osa03LNT0234600.1 3 30727117 T A
Osa03LNT0234600.1 3 30727801 T C
Osa03LNT0234600.1 3 30731350 C T
Osa03LNT0234600.1 3 30733226 A C
Osa03LNT0234600.1 3 30733263 C T
Osa03LNT0234600.1 3 30730774 A G
Osa03LNT0234600.1 3 30727694 G A
Osa03LNT0234600.1 3 30728383 C G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0234600.1 osa-miR5795 Translation 5.0 12.77 1 22
Osa03LNT0234600.1 osa-miR6250 Cleavage 5.0 19.658 1 22
Osa03LNT0234600.1 osa-miR7695-3p Translation 4.5 15.954 1 21
Osa03LNT0234600.1 osa-miR164a Translation 3.5 17.712 1 21
Osa03LNT0234600.1 osa-miR395t Cleavage 5.0 19.785 1 21
Osa03LNT0234600.1 osa-miR164c Translation 4.0 17.712 1 21
Osa03LNT0234600.1 osa-miR164f Translation 3.5 17.712 1 21
Osa03LNT0234600.1 osa-miR426 Translation 5.0 19.995 1 21
Osa03LNT0234600.1 osa-miR1428b Translation 4.5 13.953 1 21
Osa03LNT0234600.1 osa-miR1428c Translation 4.5 13.953 1 21
Osa03LNT0234600.1 osa-miR1428d Translation 4.5 13.953 1 21
Osa03LNT0234600.1 osa-miR2097-3p Cleavage 4.0 22.154 1 22
Osa03LNT0234600.1 osa-miR3981-3p Translation 4.0 19.348 1 21
Osa03LNT0234600.1 osa-miR164b Translation 3.5 17.712 1 21
Osa03LNT0234600.1 osa-miR164d Translation 3.5 17.712 1 21
Osa03LNT0234600.1 osa-miR164e Translation 3.5 17.712 1 21
Osa03LNT0234600.1 osa-miR529b Translation 5.0 18.244 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0234600.1 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
Osa03LNT0234600.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0234600.1 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