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

>Osa10LNT0070500.2

AGTCTGAAATCATCCGTAGTATTCATCATTAGTGTCATATTGTTGAAGAGATCTGACACAATGGAATACACAGCGCAGTGAGTTCTTGCATGTCCCAACTACCCATCACTAGCTAGATATCACAAATTTGAAGTTGAAAAAACAAAAACCAAAATGCAGCACCCAATCTTCCTTCTGACCTTTAGGGGCTAACTGGACTTAACATGCTATACAGACAAGAAATCAATCGGCTGTGAGCAGAGGAGGTCATGAGCTGCGATGCTGGGCATTGGAGATTTGCAGACTCAGCGCCATGCCACCAGAGGGAAGCCCAGTTGTAATTCAGGGCTGTTTTTGTGACTCAAGGTTCGGATTCACATAATCAATTCACCGTCCTGGAGATGAATTATCCATGTCAATATCTTCGGATCCATGTAGGCAGTCAGCTGTTTCGGCATTTGCATTTGCTGGCTCTGGAGACGGCAAAGCAGAATGCATAAGGGATGACTGGCTTTGTACTTGTTTTCTGCCTGGGTCAATTTCCGACTGACCTTCTATGTTCGGAGTAGTTGCTGCTTCATCAAAAACAGGTATCACGGTATGCTCATTAGCTGGTTCACACTGACTACCTGGAATGCTTTCTAGTTTTTCTCTATTCACATCTTCTGTTACATCCTGACTATTAGAAACAGGTGAGCTTCTTTTTATTACCTCATGCCCAATACTGTCAAATATGTCTTGAAATTTATGTAAAGCAATCTCCATGTTGTGAAGCTCCATAAGCATTGCCTGCTTCTCTGAAGTCAGTCTCTCAATAATCTCATCCTTCACCAATAAAGATTTCCTAAGTTCTTCTAGTTTGGGCTGAAATTTGGTGTTGAGTTTCTCAGCCTCAAGGCGTTCCCTCAATTCATATATCAACCTCGCCCTATTCCGGAGTTCAAGCTGGTAATCATTAATTTTTTCTTCGAAAAACCTAAGTTTTTCAACAAAATCTTTCTCAAGCACAGAAATCTTCTCTACTTTACCCTTCAAGTCAGAAACTACATTTTCCTTGTCGCCAACTAGACATTTCACATTACCGAGTACTTGTTTCACCGCAGCGACTTCCTTTCCTACTGAACTAAATAAAGCCAGATGAGCATTCAGCTTTTCTGAAATCACAGCAATCTGTTTATCCTTCATCTGGATAGTCCATTGCAGAGAACAAGCAGAGTCCTGCCTGCCTCGTAATGTTTTATGAAAGCCTCCTTTGATTGAAGCAGTCCCTCCATGTTATCTTTTAACTCCTTTTCGTTTTTCTCCAGCTGCTCATTTTCATTTTCAAGGCATTTTATCCTGGACTCGAGCCGACGGAGCGCGTCGTCCCTCGCCGCCACCTCCGCACGCAGCTCCCGCGTCTCCCGACGGTGCCCCTCCTCCGCCTCCTTCCATCTTTGGCTGGCGGCGTGGAGCTCCTCGCGCGCCGCACGCTCCCGCTCGCGGAGGAGCCGGTGCTCGGAGACGAGCGAGAGAAGCTGCAGCTGCAGCTGCGGCAGCGCCGCCGCCTCCGCCTCCGCCGCCATCGCCGCCGCGCCGGTGAGCTCCCGCTTCCTCTTCCTCTCCACTCGACGAGCCAAAAAAAAAAAAAACTCCCACGGGGCCATATACTGGGCCTTGCCAGCCCAAACCCTTCCGGCCCAAAAGGCCCATCCGCGGAAGCCGAATCTCCATCGAACGAACTCGACCGTCGATTCAGATCCGACGGCTGAGATCCCACCCAAACCCTAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.903088
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0070500.2 10 14327143 A G
Osa10LNT0070500.2 10 14327858 C T
Osa10LNT0070500.2 10 14327994 A G
Osa10LNT0070500.2 10 14328621 T A
Osa10LNT0070500.2 10 14328979 A G
Osa10LNT0070500.2 10 14329196 C T
Osa10LNT0070500.2 10 14329737 C T
Osa10LNT0070500.2 10 14330471 T 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
Osa10LNT0070500.2 osa-miR5813 Cleavage 4.5 16.978 1 22
Osa10LNT0070500.2 osa-miR6253 Cleavage 3.5 12.817 1 22
Osa10LNT0070500.2 osa-miR419 Cleavage 4.0 16.653 1 21
Osa10LNT0070500.2 osa-miR1858a Translation 2.5 18.59 1 21
Osa10LNT0070500.2 osa-miR1858b Translation 2.5 18.59 1 21
Osa10LNT0070500.2 osa-miR3982-3p Cleavage 5.0 20.426 1 21
Osa10LNT0070500.2 osa-miR5074 Cleavage 5.0 15.856 1 21
Osa10LNT0070500.2 osa-miR5488 Translation 4.0 16.653 1 21
Osa10LNT0070500.2 osa-miR5073 Translation 4.0 20.125 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0070500.2 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0070500.2 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0070500.2 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0070500.2 10 Phyllochron Morphological trait Culm/leaf R1629 R2447
Osa10LNT0070500.2 10 nan Physiological trait Sterility C701 C16
Osa10LNT0070500.2 10 nan Resistance or Tolerance Other soil stress tolerance R1629 R2447
Osa10LNT0070500.2 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
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