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

>Osa08LNT0406400.1

CCAATAACAAACATATAGCACAAAGATTGTAGCCCAGTTAAAATCCAATAAAATTCAGTTCACATATGATACATTGCAAATACATATGGGCCGACCCATTCACATATTCAAATACAATCACAAGTTTGATAAAAAAATAGATTACAAGGTAACTTGCCAAAACAAAATACATCAGTACATTGACCATGCATATCCAGCCATAAGTCACTGACCAAAACAAAGTCACATGTCCACATGGGCCGACCCAACCATGTCCAAATACAATCATAGGTTCACTTACCAAACACAATGTCACGTATCGAAATCACACCAACATACTGCCATCTCTTCATGAATCAGCAAGACAACAAACCTTACCTCATGGCATGTCAATGAGATCCTGTCCTTTGCTGTGTTTCACAGTTAAAAGGAACATGGAACAGTAGAATAGTATGGAACATTCTCATGGTTAAGTTTCTTTCACACTTGTCCTATAGAAAAGCAAACATTAGTAGCACAGTATTTGTAACCACAACCATACAAAACTTTGAACCCCCGCATGTGGCCATACAAAGCTTTGAACCCCTGCATTGCAAATTGAGGCACAGGCATAGGCATAGGCATTGCAAATTGAACATATAGTACTAGTAAGTACCTAAATAGAAAGAGAACATAGGCATAGCAAATCAAAACAATAGAGTTATACATGCCAAGACATGTGAGACATATGCATAGTAATGTAAGCCTACTGCAAGCAGAACCCCTCCCCCTTCCCTCTACGACAAAACAAACTGAATTGCAAACTCAATTGGATGTGTACGTAGTGCTTTATCGACAGATTTTCAGCCATTGTAACAGTAAAGTGTGGATGATAAAAAAAATCATATATGGTGAACACATATTATGAAGCTACTATTGGGTATGTTTTCGGTTCAGATTACAGGGTAGTTACATGGATCTGATTTCAGTAGAACCCAAACATGAAACCATGGCTAATTTTTTATGCTCTATTATTATATTGGATATGTGCTAGGAAGATTTCTGGGATGTGTGAAAGATTTAACTAATGTTCTGTAGTCATCATTAAGGTCATGATGCTACACAAAGCACTTCCAGCCCTATATATCTGATCACACTAACAAAATGCAGCTACAAGTACCCAACACATAAGTTATTTATATCAGAACTTAAAAGTACCCTTCTATGTAAAAGCTAACATCCCAAAGAGAATAAGAATCACCTTTGTCATAAAAGGTGAGCACATGTAATTATACAAGACCAAAAAGTTGTAATTTAAACAGAAGTGCTGAGACTATTGTTTATATAGATAGCTAGATCATTGTGCGTGCTAACCTTGGAAAAAAAGGAATAGTTTTCACCACCCAGTTACTACCTTCTTCAGATCTCACCACCCAGTTACTAAAACCCTAACATAATTTGTCATATTCCTCTGATTATCTCCACCTTATCGTCGGCGGCACCGGATCCGCGCGGGGCGGCCGAGCCGCCCCGCCGCCGCGGTGTTGAGGAGGGGGGAGGGTCGCCTTATCATCGTCGTTGTCAGCAGCGGTGAGGAGGGGATGGCGGGCCGCCGAGCCGAGGTCGCCGAGCCGCCGCCCGTCGCCGCCGTAGCCGCTCCCTATGGCGGCGGATCCGGCCCTCCCGAGGGCGGCGCCGCCGGATCCGCCGCCCGCCGACGCCATCGCCGCTCCTGCCCGAGGTCGCCATCCGCCGCCGGCACCACCCGCGTCGTCGTCATCGTCGCCCACTCGTCGTCGCCGTCGTCGGGGTCGGCGTCGTCGTCGTCGGGGTCGCCGCCGCCGCCGCCACCACCACCGGGGAGGAGCGGCCGCGCGCGGAGGGCAGCCCGAGCGACGGGGGCGCCGAGAGAGGAAGAGAAAGAGAGGGAGAGGAGAGAAAGAGTGAGAGAGAGAGAGAGGAAGAGAACGTGTGAGGACTGAGAAGGGGAA

Coding Potentia
Explanation CPC Score
noncoding -1.11778
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0406400.1 8 10086883 A T
Osa08LNT0406400.1 8 10086841 A G
Osa08LNT0406400.1 8 10087151 A C
Osa08LNT0406400.1 8 10087222 G A
Osa08LNT0406400.1 8 10087281 G A
Osa08LNT0406400.1 8 10087289 A G
Osa08LNT0406400.1 8 10087679 T C
Osa08LNT0406400.1 8 10088159 G 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
Osa08LNT0406400.1 osa-miR162a Translation 4.5 13.826 1 21
Osa08LNT0406400.1 osa-miR166k-5p Cleavage 4.0 10.006 1 21
Osa08LNT0406400.1 osa-miR1861n Translation 4.0 23.748 1 22
Osa08LNT0406400.1 osa-miR2105 Cleavage 4.5 7.207 1 20
Osa08LNT0406400.1 osa-miR5082 Cleavage 4.0 17.809 1 24
Osa08LNT0406400.1 osa-miR5517 Translation 4.5 20.38 1 21
Osa08LNT0406400.1 osa-miR5521 Translation 4.0 13.679 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0406400.1 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0406400.1 8 nan Resistance or Tolerance Drought tolerance RM72 RM331
Osa08LNT0406400.1 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0406400.1 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0406400.1 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0406400.1 8 dth8 Physiological trait Flowering RG333 RZ66
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