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

>Osa05LNT0311100.2

ATAAACCAAGTGAATAATTAGTCCATTTCTAATTATGAGACCCACAAAACAAAACAAGGATAAATTAGGGGGGGAACCCCGTAAGATAGCTGCTCTTCCTTGTGGCTAGCTGCTAGCGTGTGTGTACGTACGTATTGCAGTACACATCGATCGATCATGCGGCGGCGGCGGCGGCGAAGTTGTTCGAGACGGCGCCGTCGCCCTCGCCGCAGGCGCTGTGGATGGCCCTCATCCTGTCGACGGACTTGCAGATGCCGCTGCAGGACCAGTCGAAGGACGCCGCGCACACGTTCCCCGCCTGCTTCTTCCACTCGCAGTCCGGCGGCGTCGCGCAGCACAGGCTCCGGTCGTCCACGTGCTCCACCTCCAGCCCTATCAGCCACGCCCCCAGCGACACGTCCTCGTTCGCGAACCGGTGCAGTATCGGCTGGTTGATGGAGATGTAGGAGGCGAGGTCCTTGGAGATGGCGTAGATCTGGCCGGTGGCATGCCGGAAGTACCGGTTCCCCTCGTCCCCGAACTTCCAGTACTCCGGCTCGTGGTACTTCACGCCCTTCTGTGACAGAACCGGGCCGGACTTCATGCAGCCCACGTACACCCTCGGCCTCGTCCTGTACCTCGCCAGCCTGCTCGTCAGCATCCCTAGGTTGACGTGGACGTCGTCGTCGACCTTGACGTAGAAGTCGGCGTCCCAGGTGGCGACGGCGGCGGTGAAGTAGGTGCGGGTCTTGGAGGAGAGCTCGTGGTAGCCCTCGACGTGGTCGAGCCGCATGAAGTCCCGCGTCTCGGCGTCCTCCACGTCGATGGCGCGGTCTAGGGCGCCGCCCGGGGTGGCGCTGTGCCCGATCACGAACCGCACCACCACCCCCTTCTCCTCCAGCCGCCGCAGCCTCTCGCCCCTCGGCACCCACGTGTCCCGGAGCGAGTCGCGCCGCTTCTTGCTGCTGAACGCCGTGTTGATGCCGATCACCACGAACGCCCTGGGCGGCCGCCGCCCCCGCTTCGACGGCACCGCCGCGCCCAGCCCGCCGTTCTGCTTCGCGCGCTCCACCGCCAGCTCCATCTCCAGCGACGACACCGACTTGTCCAACGACTGGATTGCTTGGTGAGTTCTTGACACCTCGTTCATGATGTCGTTCGGGTTGCCCTCGTCCAGTTTATGCCGGTGCTCGCAGTCGTCGGAGAAGAGGGAGAGCCTGGAGCCATGGCCGGAGGAGGCCGCGCCGACGCTGCCCGACGGCGGTGGCATCAGAAGCGTCATCCGGCCGCTGAGCAGCAGGCCGACGAAGAAGCTCGTGGCGCAGAGCACGACGACGGCCTTCGCCGACATCGGCCTCGCCCTCGCCGCCTTCTTCTCCGACTGCGGCTGCCGCTCCGTCAGTGCCTAAGATCTGTGCAGGCGGTGCAGCTCAGAAGTCGCACTATCTTCCGCATCAAAATTACCCACCTTCAGTAGGGTTCTTCACAAACTGACTGCACACAGGGTCAAAAAAACAAGTAGCAAGCTTGCATGACAGGCAAAGTCCATCTTGAATTGTTGTTCGACATTATAAATATTTCCAACTGAATAATTTGGCATCAATGGCATCCTTGGACTCACAGCAATATTTCCAACTGAATAATTTGGCATCAATGGCATCCTTGGACTCACAGCAAGATGAGCAAGTAGGCATACCAGAAGATTGATGTTGCAGCTGAGCACTCAAGCAATAGGAAATGCACGTCTCCATCACTCCAGAGCCAGAGGCGGCCAATGCTGGATCCAGAGTGATGATGCATATGAATGCCTGTGACTTCCATAAAAATATTGCTCAAGACGAACAAGTCATCTAAAACATCTTTCATATTCATAAATAAACATTAAATTTCAGTAGATTTGCACTGTTTTTTAAATAGTAGACAATGACATTATCTTTTGTGATGCCCAACATAATACAAACCAACTTTGACGAGAAGAACAAAATACACCAAGAACTCAAGCACAAACTTGGTCCCACTGGAACACAGAAGCAACAACAAACATCACTAGATTAAATATTAAAACACAAATTGCCAGCCATCCCTGCAATTAGACTAAGTCTTGGTACAGCTGCATTAGTGGAGGCATGATGCTATCACTAGGACATGACATGGGAGATAACCAGCGGGCACAAGTCTGACTACAATGTTGAGAACAGAACAATGGAAAAGATAAGCATCGGCCTACACGACTAAGCCATAAGACATATTTACATGCATGTAATGGTGAATACATAGATGATATTACAGAAGGGCTGAGACAACGAACATTGACATCGCTGGGCTAATCTGTTAGCATACCATGTTCTTCCCTGGAGCTCAATATGCTAGTAGGACGGGTATGGAATTGGTTGCCTGTCAGTACGACGGCTAACGTCATTCAGAACAGAACCAAATACGCGTCTACTATATTCGTATGTACCATTGCTTAATCCTCTACTCGATATCCCACTTGGTGCCTCAGAGTGCGCACTATAAGAATGGTTTGGAGAAATACCAGCAATCCTGCCATTTACCACTGTATGTTGCGATGCGGGAGTATCACTAGATCTCATTAGCTGAGCCGGCTTTGGTGGCGGTATAGGGTTCACTTTAGGTGTTACAGGAATATTTCCATTAGAAGATTGCTTGTCTTGTCCAGAAATCGCAAATCTAAGTGTTCTATTATGAAGACGAACAAGGCCAGAAAATAGCTTAACAGCATACTGGGCAATCTCCTCTGTTTCATACTCAGCAAAAGCATAACCTTTGGAGCGATTAGTTTCCTTGTCACGTGGTATGTGTAGGTCTACAACACGACCTACCTGAATAAGAATCTCATACAAGACCCTCTCAGGTACCTTTTCATCCAAGTTACCTATGAAGACGGTGCAGCCCGGATTCCTCGACATGGCGCTCCGGATCTGGGTCGGGCAGCCAGCCGCGCGTGCTGCAGGAGGGCGAGGCGAGGCGAGGTTACGAGCAGCCGCGAGCGAGAAGCAAGCGCGCCGAGTCCAACCGGGGGGCAACGGCACGAGGAGGGAGGGAGGGGAGGGCGAGGCGCACGGCGCACGGGGAATTCGTTGGCAATCAGCTCAC

Coding Potentia
Explanation CPC Score
noncoding -1.09282
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0311100.2 5 20951072 T C
Osa05LNT0311100.2 5 20951117 A G
Osa05LNT0311100.2 5 20947255 A G
Osa05LNT0311100.2 5 20947345 C G
Osa05LNT0311100.2 5 20950343 A G
Osa05LNT0311100.2 5 20947059 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
Osa05LNT0311100.2 osa-miR5512b Cleavage 4.0 19.475 1 21
Osa05LNT0311100.2 osa-miR528-3p Translation 4.5 15.551 1 21
Osa05LNT0311100.2 osa-miR5489 Translation 4.0 7.683 1 21
Osa05LNT0311100.2 osa-miR5490 Cleavage 5.0 16.578 1 21
Osa05LNT0311100.2 osa-miR5498 Translation 5.0 24.788 1 21
Osa05LNT0311100.2 osa-miR5512a Cleavage 4.0 19.475 1 21
Osa05LNT0311100.2 osa-miR5832 Cleavage 3.5 21.593 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0311100.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0311100.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0311100.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0311100.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0311100.2 5 nan Morphological trait Seed RG13 RG573
Osa05LNT0311100.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
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