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

>Osa01LNT0030900.2

GCAAAGAAACAAGCAGCAAAACAACCCTCGCTACTTTTCTTCCTTAACAACTCTTCCTACCAACCAAACGAAACAACGAACCCCCAATTAATCATCATCCCGTCATGACAAGCGAAAGCCAGTATCAGAGAAACTAATCAACGCCATTCAAAATTCAATTCATTCATGATTGACCACCCTGCAAGAAACCTTAGCTCGATTGGTCTAGCTAGCTAGAGTTAATTAACAACATGCCAATTAAACATATGTGCATATATATGAAGTACTCGTACTCTTCCATTAATGGAGCTATATAGGAGAAGATCAATGTAAAGTTTGCATAAAATTATCATGGCTCGTATGGTCAGTCCTGCAACCTGCAGGGTGCAATGCTGGAGCCTGGGAATTAATTAGGCGCTTACATGTACAAGAAGTGCTTAGTACTAGAGCTAGGTAGAGCTAGCTAGTAAGAGCATAGAAATGATACGAGACCCAGTAGAAAACCCTGTACCATCTCGCAGCACGAAAGAAAAAAACAAAATCAAGAAACGAAACAGAAGGTGATCATTTGGGGGGAAAAAGATGTAACGAGATGTTAATTAATTAAACAGCATGATCGATCGAGAGCCAAATGACCTCTTGTCTAGCTAGTCTGATGATTAATTCAGCTTCAGATTGATGGTGGTCGTCGCGTCAAGGCTGGTTGGTGCCGTGGATGAAGGACGGCAGCAGCATGTCCTGCAGGAGGCCCAAGTCTTGCGCCATGAAGTGCTGCATCTGGAGCGCCGCCGGTGACGACGGCTGAGCCGAGGCGGCGACGGTGACCGCGCTCGTCGTCTCGCTCGAGACGCCGCCTCCGCCGCTGATTGCACTGTTAAGGCCATGGCTCGTCGTCGTCGTCGCCGCGGCGCCGCCCATCGTAGTCATGCCGTGGTGGGCGGCGGCGGCGCGCGGCAGGAAGCTGCTCAGCACGTCGATGCCGGACGACCGGCCGAACTGCGCGGCGGCGCCGGAGCCCAGCGGCAACGGCGGCGCCATGCCGTGGTGTCCGTGGTGGCCGTGGTGGTGGTGCAGCTGGTGCGCGGCCGCCGCCGCCGCGGCCGCCTGCGCGTGCGCGGCGAGCAGGTGCGTGCTGCCGCGGAGCGTGGCCGGGATGGGGTGCGTGTGCTTGCCCTCGTACGTGGTGATCACCACCGCCGGGTCCTGGTACGACCGCTCCACCCGCTTCTTCACCGGGCACTTCTGCGTCGTGCACCTGTAGTAGCTCCTGGGGTATGGGCTGTTCTTGACGGCCTTCTGGCCGTACTTGCGCCACCGGTAGCCGTCCTCGAGGTGGTCGACCTCGCTCTTGGTCATGAACGCGAACCGCGGCTGCCTCGCCCGCTTCTCCCCCTTCCCCGCCTTCCCTCCCTTCGCCGCCGACCCTTTCTTGTTCTTGTGTCCTTCATCTTCTTCTCCCTTGCCTTCCTCTTTGTTCTCATCCTCCTCCTTCTTGCACCTTGCCGGCGACTCCTCCTCCCCGGCGCCGGCGCCGGCGCCGCCTCCACCTCCTCCACCAACCCCCTCGCTCGACGACGTCGACATCGACGACGTCGTGTTCGGCGTCAGCGGCGGCGCCCCGCCGCCGCCGGCCGCGACGACGTCCACCACCCCGACCTCCCTCTTGACGTCCTCCCCGACCGGCAGCTCCAGCGCGCGGCACATCAGGTCGTAGTCCATCTGCATCGGCGTCCCCGCCTGCAGGTAGTCGGCGAACCACGACGACGGCAGCATCTGCATCTCCCCCGCGCCGCCCCCCGGCCGCGCGAACAGCGGCGCCAGCTCGTCCTGGAACTGGTACTCGCCCGACATAGCCGGATCCACCGCCGCCTCTCGCCGACGCTGGCCGTGCTCGTGGTTCTTGGCTCTAGCACGCACGCACGCACGCACCCTCTCTCTCTCGCGCTTCCAGGATCGAGATGGAGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.439507
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0030900.2 1 27196918 G A
Osa01LNT0030900.2 1 27197114 A G
Osa01LNT0030900.2 1 27197492 T G
Osa01LNT0030900.2 1 27198631 G A
Osa01LNT0030900.2 1 27197221 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
Osa01LNT0030900.2 osa-miR167c-3p Cleavage 5.0 23.173 1 23
Osa01LNT0030900.2 osa-miR5499 Translation 4.5 7.395 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0030900.2 1 QPh1b Resistance or Tolerance Submergency tolerance RZ527 RZ154
Osa01LNT0030900.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0030900.2 1 nan Morphological trait Seed CDO118 CDO455
Osa01LNT0030900.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0030900.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0030900.2 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0030900.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0030900.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
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