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

>Osa02LNT0171500.1

ACACCAGAGATGAACACACATACACAGTCACACAGGCAAGAAAAATATACGGAGTAGTAAGCAGAAATGTCTGATGATTTGATCGATCGCGTCTTTTTCCGCCACACTGTAGTCCAGCGCGAGACGGCACCAGCTGCTCTTCACTCTTGAGTGTTGCAGCTTCCGACAGCAACGTGGCGACCGGCTGCAACGTCGTCGTCGTCGTCGTCGTCGGCGACGACGTGGCGCGGCGGCGGCGACGGTGGCGGCGGCGACCTCCTCCTGAAGCGCACCATGAGGCCGTTCTTCATGTACAGCGTCGTGGTCAGCTTCGGCTTCACCTCCTGCCCGGGCACCACCTCGACGGCGAACCTGGACAGCACCGCCGCCGCCGCGGTCTTCATCTGCGTGTAGGCGAACCGCTTCCCGATGCACAGCCTCGGGCCGGCGTTGAACACCGCGTACTTGAACGGGCTCTCGCCGCCGGCGAACGCGCCGCCGCGCATCCACCGCTCGGGCCGGAACGCGGCCGCGTCGTCGCCCCACGACGCCGGGTCGCGCCCGATCGCGTAGGTGTAGTAGATCACGCGCTGCCGCGCTCGCACCGGCGTGCCGTCCGGGAGCACGTCGTCGGCGAGGGCCTCCTTGAAGTCGACGGGCACCGGCGGGTACAGCCGCATCGCCTCCGTGAGCGCCGCGTGGAGGTAGTCCATCCTCTTGATGTCGCCGCCCGCGGCGAGGACGTCGCCGACGACGCGGGACTCGACGTCGGGGTGGCCGGCGAGCAGCCAGAAGAACCAGGCGAGCCCCACGGAGCTCGTGTCGCGGCCCGCGAGGATGAAGCTGATGCAGAAGTCGCGGAGGAACTCGTTGGAGTAGTCGGCGCCCGGCGCCGATGACATGAGCCGCGACAGGAGGTCGCACCGGCCGCGCAGGCTCCCGACCTTGCGCATCTCGTTCCGGCGGTCGGCGACCGCCCGCTCGGCGAACTCGCGGACGGCGCGCGTGGCCTCGACGAGCCGCCGCTCGCTGCCGGCGCGGAGGAGCCGCTTGGCCTTCCAGATGAAGGGCGGGGTGACGAACCGCAGGAGCGAGAGCTCCGTGGCGAGCTCGAACGCGCGCGCGAACGGCACGTCGGGGAGGCCGTCGGCGAGGCACCCGGCGTCCACCCCGAACGCCACGGCGCAGATGTTGTCGAACGTGAACCGGAGCAGCACCTCCTGGAGGTCGACGGCGGCGCCGCCGCCACTCAGCCGCTCGGCCAGCGGCACGAGGCGGCCGTACACCAGCTGCTCGATGCTCCTCACCGAGAACTCCACGAACCGCGACGAGTGCATCTCGGCGGTGGCCGCCCGGCGCTGGGCGCGCCACGCCTCGCCGTCGGCGTTGAAGATACCGCCGCCGAGCAGCTCGACGAAGCGCTCCCGGTAGTAGGGCCCCTTGGGGTAGTTGCCGAAGTTGGCCCTGAGCACGTGCTCGACGTTGGCCGGCGCGGAGGTTATGACGCCGGAGGAGCCCCCGCCCCACGTGCCGCGGTACGGGAACACGCCGCCGGCGCGCAGCAGCGCGGCGGAGCCCCACTCGTAGATGTCGTCGCGGTGGACGAACAGCGTGGGCAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.768272
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0171500.1 2 23153128 T A
Osa02LNT0171500.1 2 23153906 C T
Osa02LNT0171500.1 2 23152951 G 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
Osa02LNT0171500.1 osa-miR6249a Translation 4.5 22.912 1 21
Osa02LNT0171500.1 osa-miR6249b Translation 4.5 22.912 1 21
Osa02LNT0171500.1 osa-miR5498 Cleavage 5.0 21.468 1 21
Osa02LNT0171500.1 osa-miR812o-3p Cleavage 5.0 15.865 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0171500.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0171500.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0171500.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0171500.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171500.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171500.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0171500.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0171500.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0171500.1 2 qSS-2 Physiological trait Sterility RM301 RM263
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