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

>Osa09LNT0444800.1

CGCTGGATCCTGGGCCATCCCGGCCCGGCCCAAATATCGATTAATTTAGCCAAAATGTGGCGGCAAACACACACGCCGAATTACAGATAGTAATACAAATCACAACATTATTTGCTCGGAATGAGACAACGAACACGAACGCCATGAATTGCCTTAGCTAGATGTCGCGTTGCATCTTCTCCAGCGACGCAAATGCGATGCAGCAGCAGCCGCGCCGCCCTCTCGCCGGCGTCATCTTGCCCGGTCGCTTCATCCTGTCTCGCCGGAGGAACGCACCGTACGTCTCGCCGTCGTCGTCTCTGAACCCCCTGAAACCTCCTCACGCCGGCACGCGGCGTCCGATCGATCGATCGATCTATCACGACAGCGTCCACATGAAGAACGCCGACCACACCGTCACCGCGACGGAGGCGAGGGCGTACACCCACACGAAGATGACGGAGCACTCGCTCTCCCCCACGCCGAACAGCTGCGTGATGGTCCCAATGTTCATCGCCGGCGGCACGGCGTACTGAAGCAATAGGATGAACTGGTAGAGGGGATCAGGGTGGATGAGGCCCAGGTGAACCGCCGATTTGACGAGCAAGGTGCCTAGCGAAGGGAGAAGAATGTATCTGACGACGATTACGCTCGCTATCACTGAAGGCTGGACGCTTGCTTCTCCTCGTAATCCATTGAGGAGGTTCCCTCCCATTATCAGTGTGACAGATGGAATTGCTCCTCCACCTATTAGATCAGCTGACTCATGAATGACACGAAGAGGAGCGTTTTCTCCGATAATAGCATTTCTAATTAGAGGCGTTCCTCCAATTATAAACCCAATAATCACAGCAATGGTTGAAGGAGCAAAGATCTTCTTGAAGTCAATTGCTCCGAACATTGATGATACAAATCGCTTCGCTCTCTCTGACAATGTGACCTTAGTTTTGCTTGAAGGTACACTTGAATTGGATATCAAAGGGAGTGTGCATTGATTGTTATCGTTTGGGATTGATAAATTCTCTTCTGACGCTGTTCCTGTACTGCTCCCTGAATTGGATACTTTTGTATCATTTGTTCGAGCATTACCTTCATCAGCCACTTTTGAAGTGGCTCGCATAATGTTATACGCGACAGTCCACAGAAAGACAGCACCAAGAGCCATTGAGAGTGAAGAATACGCTAATCCATAAGTGTGACAAACATCAGGTGCTCCAAACGGGCTTCCTTTCTCTTTGCAAAGAGCAGGAATGATGATGAGAAAAATATTGCCCCAATTGCCAGCAGAACAGCAACCCAAAATGAGGCCTCTTAGCCTAGCCGGTGCTCTGGTGACATGTACCACGATCCATCCAAGGATTAACCCAAAGGTACAAGCAAGAAGAATATTCACAGGCATGAACCACAATTTAGCCAAGCCTTCCAATGTGATTGTTTGTGCTAAATAGGTCGCAACAAGAGATGGATTAAATACATAAAATACTATATTGTTTAGATATTTCCGTGCATCTTTGTTCAGTATGCCAACAAAATCAGTTGCCAGGAATGATCCAACACCAGTAACCAGAAGCATGTTCAGAACCGGCACACATGCTGTAATAAAGAGCTCCAGGAGGCCCATGATTGTTGTAGCTTAGTTCAACAAGCAGTCACTGTTCCCTGTCCTTAGCTTCGTTCTTGCTGGCCTGCACGCGCCGCCGCAAAACCGCCGCCGCCGCCGCCAATGAAGAAGATGGAGGGAGATGAAGAAATTAAAGCGCGCGCTCGCCTTCGATTCCGAGAGAGGAGAAGAGCCACCTGGCCGATACCGGCGGAGCTCTGCGCCGGCGGCGGAGGTGGCGGCGGCCGACGATTCCGTGGCCGCCTTTTCTTCTCTTCTTCTCCAGCTCGGGCTCTCGAGGGTGTGGTTCTGAGGCTTTTCTCACTGAAGATTATATATATATTGCTCG

Coding Potentia
Explanation CPC Score
noncoding -1.05561
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0444800.1 9 18978477 T C
Osa09LNT0444800.1 9 18979001 A G
Osa09LNT0444800.1 9 18979435 C A
Osa09LNT0444800.1 9 18979553 T G
Osa09LNT0444800.1 9 18980419 C T
Osa09LNT0444800.1 9 18981069 G T
Osa09LNT0444800.1 9 18981848 T C
Osa09LNT0444800.1 9 18982306 A G
Osa09LNT0444800.1 9 18982405 A G
Osa09LNT0444800.1 9 18982527 T A
Osa09LNT0444800.1 9 18982686 G C
Osa09LNT0444800.1 9 18983320 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0444800.1 osa-miR5516b Cleavage 4.0 21.07 1 21
Osa09LNT0444800.1 osa-miR1432-5p Cleavage 5.0 18.063 1 21
Osa09LNT0444800.1 osa-miR5516a Cleavage 4.0 21.07 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0444800.1 9 cisc(t) Resistance or Tolerance Cold tolerance nan nan
Osa09LNT0444800.1 9 qGL9 Morphological trait Seed RM257 RM242
Osa09LNT0444800.1 9 mrl9a Resistance or Tolerance Drought tolerance RM201 RM410
Osa09LNT0444800.1 9 qCCAI-9 Physiological trait Source activity RM257 RM201
Osa09LNT0444800.1 9 nan Resistance or Tolerance Other soil stress tolerance R2638 C1263
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