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

>Osa03LNT0226500.3

GGAACTGGAAGTACTATCGAAAATTAGTTCAATCATACATGTATTTGCACAGATGTATCATGAGGTGCTCTTTACATGGAAGATGAAACATACATAAATGCAACTCTTGTCAAACTTGTATTCTAGGTATGGTTGGAAATTTTGTAGAACAGTAGAGATCACAAGGATGATAAGAAGTGCATCACATGAGCAGCAACTGAATTAGTGTATAATCAAATTGCTGATATTATACATAGGAGTACATCACCTTCTTGAAATGCCATCGGTAATACATGCTATTTTACAAAGAATGTAATTACAAGAGAGAACAAGAAAATGTCCCTAGTTCTCTTCAGGGTTGTAAGATGGCAGCAAAACGGACACTAATCCTCAGCAACATACTTGTTCCTACGAGCACCAAAAGCAATCCTTGAAAATATTCTGGAGTAGGCTTTCAAGCCTGTGAGAAAACGGATGTAGGTTGGTTTCATGGACTGGTTAGTAGGTATTGCTCTGATGTTTGGAACGAGATAATCCGCAACCTATCATAATTCATAATAAAGTTATAAAAAAATATATTTTGGACCTTACAGCTAACTAGAAGACTCAACGAGTGTACATTACCATCAATAACATGTAAGGCAGGTAAATTGGATCACTCATAGATATATCCCGTGTTACATGAACCTGGATGTCATTGGTGGTATAAAGCACTGCCCATGTCATGTAAAGCTTTTCAACTTTTTAAGTTCAATCGAGCTAACGTATTGAACTATAAACAACTAGTTTTTTTATGTGTCCTATGAAAATATTAGATGGCCACATTTGTTCTGATCAAAACAACTGAAGCTGTGCGAATAATTGTTTTGCACTGAAATTAATAAATACTAAGGGTATGCATGTGTTTCATGACAGATGTAAAGGTATGCATGATCAACGAGGTATTCATTAGCATGTTTGAACATTGATAATGCAAGTAAATACGTCAGGTTTAACTTAACCCATCGATAAAGAATTGTCTCATGATTTTCATGAACATATAACCAGGTCCAGAGATCATGTTCAAGCTATTTGGTTAGATATTTCAAGCTATTTGGCTTGCAGTAGCTAAATCATGTTTGCTACTTCAGTCTTCAGCCATATGGAAACTAGAACAAGAAACAACGATATGCTGGGGAAAAAAGAAATCAAGATGGAGCTCTTACCACATTAGCAGGTTCAGCTAATATATTGATGAAAAATTTGGCCTGCTTTGTTGTGGCACCAGACATAAGAAGATCTGTTGTAACCATGCCAGGCGACAAATTGTGCACCATAACATTGTTCACTTCATTCATCTGCAACTCGGCCTGCAGAGATTTTGTAAGGTGCACCACACTTCTCTTCGTTGCACCATATGCAGCAAACCTTGGGGTTGGCCTTCCATCAGAACCAGCACCATCGATGTTAAATATGTGGCCACCTCGAGGTTGGTTTCTCATCATATTTATTGCCTCACGACAACATATCATTAATCCAAGAGTGTTAGTTGTGATCACTTCCATGAGAGCCTCGTCGGAGGTCTCGACCAACGGTTTGTAACTATATGCATTTGATCCAGCATTGTTGATCCAAATATCAATATACTTCATCTTGTCACGTGCAAAATCAACTAGTGCCTTTACATCCTTTCCTTCCCTAACATCACAGACAATTCCCCACACATGTTGCTCTCCAAATTCCTTTTTCAAGTCAGTCACCGCAGATTCTACCCTTTCAGCTGTAGAGGATAGACTGATCTTGAGCAGATTACAACATTATCGCCAGCCTTCAAAAATTCCTTTGCCAGAGCATATCCTATACCTTTCGTGGAACCGGTGATTAGAACATTATACGGGGGCACCATGGCCGCCCTCCGCGCGACCCCTCCACCACCAGGGACAGCCTCCGCGCGGATACCGGCAGCCTCCGGCCCGCCTCTCGCCGCAAGCCGGCGCCGCGCCGTCCGGCCGGGCAACCGCGCCCCAGCAGCGGCCGAGCCCGACGGCCGGAGCGGAGCCAGGCCCACCTGCGCCTGGGCACGGAGCGGGAGGTAGGCGGCGGTGGCCGCCATTGCGGCGGTAGCGAGACGAGGGGAGGGGAGGGGAGGGGAGCGGAGTGGAGAGGCGTCGTCAACTGCGGTGCTCGCCTTGCCGGCTCGCCGTCGCGGAGTCTGGAT

Coding Potentia
Explanation CPC Score
noncoding -1.14465
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0226500.3 3 25520587 A C
Osa03LNT0226500.3 3 25521494 G A
Osa03LNT0226500.3 3 25521757 A G
Osa03LNT0226500.3 3 25522346 G T
Osa03LNT0226500.3 3 25523728 A G
Osa03LNT0226500.3 3 25524003 C T
Osa03LNT0226500.3 3 25524036 C 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
Osa03LNT0226500.3 osa-miR5822 Cleavage 5.0 16.346 1 21
Osa03LNT0226500.3 osa-miR395w Translation 4.5 3.434 1 22
Osa03LNT0226500.3 osa-miR2095-5p Cleavage 5.0 9.654 1 22
Osa03LNT0226500.3 osa-miR2102-3p Translation 3.5 16.828 1 22
Osa03LNT0226500.3 osa-miR5521 Cleavage 4.5 22.947 1 21
Osa03LNT0226500.3 osa-miR5521 Translation 4.0 22.769 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0226500.3 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
Osa03LNT0226500.3 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0226500.3 3 nan Morphological trait Panicle/flower RZ448 RZ403
Osa03LNT0226500.3 3 nan Resistance or Tolerance Blast resistance RM16 RM168
Osa03LNT0226500.3 3 gw3.1 Morphological trait Seed RZ672 RZ474
Osa03LNT0226500.3 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0226500.3 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0226500.3 3 Yd3-13 Morphological trait Seed RZ403 CDO337
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