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

>Osa08LNT0407400.1

GCTCGCAACAACACTACAATATTCTGAATAAATTTTGTCTATTAAGTGGTTTTCTGTAACAAATGATCATGAATGCCTACCCACTCGAATTTACATCAAATCTACCGGCGATGAAATTTACACGAAATCGCCGAACTAGGCCCCACAATCTAACAGGATGGTCACACAGGAGTTAAAGAGCACCAACAAATCAAAACTACCTCTGAAATCAATGTTAGATTGATGTACCCTTAAAGAATGCCCTACAAATGTCGGCAGTAGCTTGTCATCTCTTCGTAGGCAAGCGTTTTGGTCTTCAAAAATGGCAATTAGATGAAAATTTCCCTCCAGGATAGTTCAGCCATCGTTGTCATCCTACTCAAGCACCCAACCTGTTTGATGGGAAAACTTCCACAATCTTTGGAAACGCGTAGCGCGAAATATTTTCATCAGGCCATCGAATATATCATACTTGTTCAGAAAAGGGCCCATTTCGTTAGCCCGTTTGACGGGGTTGCTCTACTACCCTCAGTGTCCCCCCAAGCTCTACAGGAACAAGAGGAACAAGAGAATGTAGAACATCTGTGATTAGCGGTCTATAGCTCGGCTCTGGCTGGACACAAAGGACAGCTACTGCAGCAACCTGATATAGATGCCTCAAATCCATGGTGTTTCTGATAACCGGATCAATTATATTTGGTAGCTTCGTTCTATCACTTATCTGAGGTATGGCCCATGACACAATGGATTGACAGTGAGAATCTCCAATCTTCTCTACTGGTTTCCTTCCAAGTAACAGTTCGAGAAGAACCACCCCAAAAGCATACACATCACTCTTCTCAGTTAATTGACCATCTAGAAGATACTCTGGTGCAACATAACCGACAGTTCCAGAAGGCTTTAAATCAGCTTTGTTGTGGTTCCCACCATAAATTGCAAGGCCAAAATCTGATATCTTTGCATTGAAGTCTGAATCAAGAAGTATATTGGACGACTTTATATCTCTGTGAATAATCAATGGATTGCAGTGCTCATGAAGGTGTTCCAATCCTCTTGCTGCATCAAGAGCAATTTTCAACCGAATGTACCAACTTAAAGCTGATCCATTTGAAGGTCCATGTAATTGTGTTTCTAGAGAACCATTTTGCATCAGCTCATATACAAGCAGCCTTGTGTCTTCATGAATGCAATATCCTAGCACGGAGATCACGTTGGGATGCCGAATTTTTCCAAGAAACTCCAGCTCATTCTCAAATTCTTTCTCTACTTCTTGTCTACAACAATTAAGTTTCTTAACAGCTGCAACAACCCCTCTATCAAGACATGCTCTATATACACAACCAAAACCTCCTTTTCCCAATATGTTATTCTCACTGAACTTGCCCGTAGCAGAGTCTAAGACTGAAAAGTCCATCATTGCAACCACTTCTTTCTTGGACGTTTTCATTGAATTCAGTTTCCCAAACATGGGTAACAGCATGTGCCCCTTGGTAGTACTTGAGAGTTTCTTGTCCTTGGAATCCAGAGCTTGACGAGTTTTTTTCCAGAAGGTCCATGCATAAATTGCTGATACCACCGTTACAATGACTGCGGCAAGTGCCAAGATGACTGCAACAAGGATCTCCTTTTGGTAATGGTTGCCACCCTCAGTTTGCACTGCAGGAGGAGACGCCACATCAGGGAGATAGGGCGCGTCCGCCACCGGTGACGGCGCAGGCGGCGAGCCCACCTCGCCGAAATCCACCACCCTCGCCGCATCCGCGAGCAGGACAGCGCCTCTCCCCACCACCGCCACCACCGCCAAGAAACCGCCTTTCCCGGACACCCCCATCCTTCTCAGCGCCGCCCCGGGGAGCCAAGAACAGCACGCCGGCGGCCAAGTTTGAAATTTCCCACCCACCGTCTCACCCTCTCCACAGCCAGCCAAAGGCAACCTCCACCTCTCTTCCTCTCCTTCCTGCTGTTTCTCCGGGTGGTTTTGGGGGTTTTCGAGCGGGGGAGTGGGAGTGGGTGACTGCCTGACTGGGTGTGGATGCCGCAGCTACGACGCAGCCACCGGCGGGGTGGGTCCCGCTCCCGCGGTGGCGGGGTTCTCTTCTCGGGGGCCGTGGGGTGGCTGCGAGGTGCGGCTGGTCCATCTCCGGTCCAGCTGGTAGGGCGTGGTGTGATTCGCAGCACGGGTTGGGTTGCGTGGTTCGATCTCCAGCGCTGCGACGCTGTCAGCTTGT

Coding Potentia
Explanation CPC Score
noncoding -1.13661
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0407400.1 8 11275552 A G
Osa08LNT0407400.1 8 11275776 G A
Osa08LNT0407400.1 8 11276309 C T
Osa08LNT0407400.1 8 11276387 G C
Osa08LNT0407400.1 8 11277148 C T
Osa08LNT0407400.1 8 11277203 G A
Osa08LNT0407400.1 8 11277947 T A
Osa08LNT0407400.1 8 11277994 C A
Osa08LNT0407400.1 8 11278830 T C
Osa08LNT0407400.1 8 11278933 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0407400.1 osa-miR5792 Cleavage 3.5 18.197 1 24
Osa08LNT0407400.1 osa-miR413 Translation 5.0 13.382 1 21
Osa08LNT0407400.1 osa-miR2104 Cleavage 4.0 17.401 1 22
Osa08LNT0407400.1 osa-miR5522 Cleavage 4.5 21.102 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0407400.1 8 nan Resistance or Tolerance Drought tolerance RM72 RM331
Osa08LNT0407400.1 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0407400.1 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0407400.1 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0407400.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0407400.1 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
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