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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Summary
Sequence
Coding Potentia
Genome Browser
Expression
Variation
Sequence

>Osa03LNT0228900.1

AAGGAAGAGGGGAAAAAATAGAGAAGATTGTGCACGTGATAATCATGTGCCAGAGAAATCAGAAATGTGACCATATGGTATTGACTGCCAAGTAGGTTATTGAGTATAAGTTACATATAACCTGATAATATGTATTTTTTTTAGTGAAAGATGGATATGTATTCACTACTTCTATATGGGTATATATATCCCTCCTATATACTTCTCGAAAGAGGAAAAAGAACTCTATACGACTATGCATACATGTGATTTCGTGGCAAGAGTAAACTTATCAGGTTTCCTGGAGATTTTAACTTACAGTATCTCCCTAGCTCTGTGTCATCTTGGGTTGCAGCACTGCGGCCTTCCTTGTGCCAGCTTGTCCCAAAGGCAGGCCATCTGCCCCGGTGACTGGTAGTGCGCGGTGAGGTAGTCGTCGACGCAGCCGAACTGGCAGAACCGGAGGCTGTGGATATAGTCCACGGCCTTCACCGTGTCGACGAACTGCCCCACCCACATGCCCATGCTCACATCCTCCATCTTGAACAGATTTAGTCTGCCCTTCTCCATTTCAGACACGACGAAGTTTGCAATGTCAGAAGAAACAATGTAGCCAGGACCATTGGCATAGGGCGGGTACGCTTCTCTGGGCCACTCCTCAAATGAGACTGCCCATTTTCCTTCTCTCAGTGGTCGATGGTAGTAGTTAATGTTCCCAAGATAGAAGCTTTTACCATATGGGATTTTCCTAACGTCAGCCATCACTGAATCAAGTCTGACAAATGTATCATCATCGCACTTCATGATATACTTGGCGGAAATGACACGTGTCGCATATTCGCAAATGGCAACAGTCTTCAGAACAACCAGATCATAACTATCTGCAAAAGGCACAATGACAATGTCTCCAAAGAAATTTGCTTCTTTCTTCAAATCTTCATTAACTTTTTTTCTTCCATTCAAGGCAACAAAAAATCGAGCCATGGCACCAGATGAATTTCGTACTGAAGACATCCATGATCTCCTCACAGCCATGCGCTCTGTGAAATGGCTTCCTGCTGAAAGAATGCCTATGAACAACTCTATAGGTTCTTCAGGCAGAGGTGGAGCTTTCAGTTCTGTAAGCAACTCCAAATTTCTCTGTGCATTTCTAGGATAAGCCATAGGTAATGAACCAGCAACTATTGATTGAATGTCAACATCGCCATTCACTGACAAGATAGCAGCATCCTCAAGGCTATAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.702618
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0228900.1 3 27715228 C G
Osa03LNT0228900.1 3 27716528 T C
Osa03LNT0228900.1 3 27716668 T G
Osa03LNT0228900.1 3 27717188 T 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
Osa03LNT0228900.1 osa-miR6253 Cleavage 3.5 20.131 1 22
Osa03LNT0228900.1 osa-miR1857-5p Cleavage 3.0 16.408 1 21
Osa03LNT0228900.1 osa-miR1432-3p Translation 4.5 16.748 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0228900.1 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0228900.1 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0228900.1 3 QFlw3 Morphological trait Culm/leaf RZ474 C746
Osa03LNT0228900.1 3 Yd3-13 Morphological trait Seed RZ403 CDO337
Osa03LNT0228900.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0228900.1 3 nan Morphological trait Panicle/flower RZ448 RZ403
Osa03LNT0228900.1 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
Osa03LNT0228900.1 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0228900.1 3 nan Resistance or Tolerance Blast resistance RM16 RM168
Osa03LNT0228900.1 3 qSB-3 Resistance or Tolerance Bacterial blight resistance R250 C746
Osa03LNT0228900.1 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