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

>Osa10LNT0070500.1

AGTCTGAAATCATCCGTAGTATTCATCATTAGTGTCATATTGTTGAAGAGATCTGACACAATGGAATACACAGCGCAGTGAGTTCTTGCATGTCCCAACTACCCATCACTAGCTAGATATCACAAATTTGAAGTTGAAAAAACAAAAACCAAAATGCAGCACCCAATCTTCCTTCTGACCTTTAGGGGCTAACTGGACTTAACATGCTATACAGACAAGAAATCAATCGGCTGTGAGCAGAGGAGGTCATGAGCTGCGATGCTGGGCATTGGAGATTTGCAGACTCAGCGCCATGCCACCAGAGGGAAGCCCAGTTGTAATTCAGGGCTGTTTTTGTGACTCAAGGTTCGGATTCACATAATCAATTCACCGTCCTGGAGATGAATTATCCATGTCAATATCTTCGGATCCATGTAGGCAGTCAGCTGTTTCGGCATTTGCATTTGCTGGCTCTGGAGACGGCAAAGCAGAATGCATAAGGGATGACTGGCTTTGTACTTGTTTTCTGCCTGGGTCAATTTCCGACTGACCTTCTATGTTCGGAGTAGTTGCTGCTTCATCAAAAACAGGTATCACGGTATGCTCATTAGCTGGTTCACACTGACTACCTGGAATGCTTTCTAGTTTTTCTCTATTCACATCTTCTGTTACATCCTGACTATTAGAAACAGGTGAGCTTCTTTTTATTACCTCATGCCCAATACTGTCAAATATGTCTTGAAATTTATGTAAAGCAATCTCCATGTTGTGAAGCTCCATAAGCATTGCCTGCTTCTCTGAAGTCAGTCTCTCAATAATCTCATCCTTCACCAATAAAGATTTCCTAAGTTCTTCTAGTTTGGGCTGAAATTTGGTGTTGAGTTTCTCAGCCTCAAGGCGTTCCCTCAATTCATATATCAACCTCGCCCTATTCCGGAGTTCAAGCTGGTAATCATTAATTTTTTCTTCGAAAAACCTAAGTTTTTCAACAAAATCTTTCTCAAGCACAGAAATCTTCTCTACTTTACCCTTCAAGTCAGAAACTACATTTTCCTTGTCGCCAACTAGACATTTCACATTACCGAGTACTTGTTTCACCGCAGCGACTTCCTTTCCTACTGAACTAAATAAAGCCAGATGAGCATTCAGCTTTTCTGAAATCACAGCAATCTGTTTATCCTTCATCTGGATAGTCCATTGCAGAGAACAAGCAGAGTCCTGCCTCGTAATGTTTTATGAAAGCCTCCTTTGATTGAAGCAGTCCCTCCATGTTATCTTTTAACTCCTTTTCGTTTTTCTCCAGCTGCTCATTTTCATTTTCAAGGCATTTTATCCTGGACTCGAGCCGACGGAGCGCGTCGTCCCTCGCCGCCACCTCCGCACGCAGCTCCCGCGTCTCCCGACGGTGCCCCTCCTCCGCCTCCTTCCATCTTTGGCTGGCGGCGTGGAGCTCCTCGCGCGCCGCACGCTCCCGCTCGCGGAGGAGCCGGTGCTCGGAGACGAGCGAGAGAAGCTGCAGCTGCAGCTGCGGCAGCGCCGCCGCCTCCGCCTCCGCCGCCATCGCCGCCGCGCCGGTGAGCTCCCGCTTCCTCTTCCTCTCCACTCGACGAGCCAAAAAAAAAAAAAACTCCCACGGGGCCATATACTGGGCCTTGCCAGCCCAAACCCTTCCGGCCCAAAAGGCCCATCCGCGGAAGCCGAATCTCCATCGAACGAACTCGACCGTCGATTCAGATCCGACGGCTGAGATCCCACCCAAACCCTAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.902849
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0070500.1 10 14327143 A G
Osa10LNT0070500.1 10 14327858 C T
Osa10LNT0070500.1 10 14327994 A G
Osa10LNT0070500.1 10 14328621 T A
Osa10LNT0070500.1 10 14328979 A G
Osa10LNT0070500.1 10 14329196 C T
Osa10LNT0070500.1 10 14329737 C T
Osa10LNT0070500.1 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
Osa10LNT0070500.1 osa-miR5813 Cleavage 4.5 16.978 1 22
Osa10LNT0070500.1 osa-miR6253 Cleavage 3.5 12.864 1 22
Osa10LNT0070500.1 osa-miR419 Cleavage 4.0 16.653 1 21
Osa10LNT0070500.1 osa-miR1858a Translation 2.5 18.59 1 21
Osa10LNT0070500.1 osa-miR1858b Translation 2.5 18.59 1 21
Osa10LNT0070500.1 osa-miR3982-3p Cleavage 5.0 20.426 1 21
Osa10LNT0070500.1 osa-miR5074 Cleavage 5.0 15.856 1 21
Osa10LNT0070500.1 osa-miR5488 Translation 4.0 16.653 1 21
Osa10LNT0070500.1 osa-miR5073 Translation 4.0 20.125 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0070500.1 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
Osa10LNT0070500.1 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0070500.1 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0070500.1 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0070500.1 10 Phyllochron Morphological trait Culm/leaf R1629 R2447
Osa10LNT0070500.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0070500.1 10 nan Resistance or Tolerance Other soil stress tolerance R1629 R2447
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