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

>Osa01LNT0017100.1

TTTTCAACAATACGTACGAATAATATTCCTTTCAAATATTTACATAATAATAGCCAATACAATGCACAGGCCAGGTTGGCAACTAGTTGACTTAATTTGCAATTCCCAATTTCCTGTCAATAAAGTCTCCAAAAGACTCAAAGGCAGGTGCAAAAAAACCCCCGGACGGCCGAGATTCTTTCGAAAATCTTTGCGAGGATGGATTTTGATCGTCCTGCCCAAACCTGCTGGCAGCGTTCTTCCTAGTCCTACAAACATTACGAGGCTCAGGCTTACGACCCATGGTTACGAAAAGCGCAAACCCCACCAACGCTGAAACAATAGCTATGGAACCGGCTATTAGATTACGAACCCATCCACCGATCGACATCAAAGCCAGCACAAGTGTTGCGCTCAAGCAAATTTTCCTGCAAAACCTGAACAGCTTTAGCAGCTCTTCCAAGTGAAATGTTCTTTCCGGCCAGTGCTGAAGCATCCACAAGTTGACGTGTGAAAGAGCAGAGGAGGAGCTAACCATGCACAAGCTCCACCTGCACCGGGATTTCACAAGTTCCCTCTCGTACGCAGCATATGAGCCAGTCAGGTATGCGAGAAGCCCTACGGTAGAGCTGAGAATGGTGACGGCTTGCGATCTGTAAGACAACACATTGTCGATGCTAACTGCAGTTGCATTCCTCGCGTCATGGTCGAAATGTACGGTGAACCACACGAGCACTGCAACGAGTCCTGGAATGCAGGCTACTATGACATCTTCCCCAATCCATTCTGCAGCCATCGTGTGAACTGTTATCAGCAGCAGAACAATGCAGGTCTTTTGCAGGACTGGAAGAACCTGAGCTGCACCGGGGCTGACACCTGCGGGTAATTTGGCAACCATCACTGCAAGCGCACCGAGTGCGGAGCTGAAGAACAGGAGGAACTGCGAGAACACAATGGTATCGTCTTGCTGTTCATTATCTGGATTCAGTATTGTGCTGGACAAAAGCTGCAACCAGCACGGCAGCGTTGCCAACTTCAGAAGCCACTCAGTGTTGGGGACATGTAGTAAGGAAACTCTGCTGATTCTGTAATCCTGCTGAATGTAAGGACTAGACTTGTCCCACAATTTGGTGCAGAGTGCTGCGATGAAGACAAGCAGGATCACTGGAATGATGAATACTCCGATATATCTAGTGTTGATCAGAAGTAGGACTGCATAATCTGCCATCACTAGGGAAGCAGCGGTGATGTAAGTCTCCAAGCCAAGAAACTTGCTCATGGTAGAGTGCATCATCCTTATGTACACGCCAGTAACAAATAAAAGCATGCTGAAATCGGCAAGGCCCGTAGAAGTTGTACTCGCTGCAGTTTTATCAGAACGCTTTGTTAACTTCGGAGCTGCTTGCGAAATTATACAGTTAACGCCGATTGCAGATATCAAAAGTTGCTGGTAGTCATGTAAAGGTTTCACCGAACTGTCGATCGACGGGTGATGGTATGAACCGCGTGTTGAAGGCCCGGTCGATTTCTTCCGACTTGACATCGCTCGAAATTGGTGTAATCCCCGCTTATTCCTTTGTCAGGAGCACTCTCATCCTTCAGCGACACGAAATTGATACAACTAGAGATTCAATCGAGAGTCAATCTGAGGGTGAGGGGAATTTTATTTGATCCTACCTAGTCTATCATCAGAGGTACAGTTTTTTGTCCGCTCATGGCTTGCCTTGGCTTTCCCTTCCTGATGCTTTACATTGACATGTCATTCTGGACATAGACACTTACGAAGTAGTTTGCAACAGGAACAAATCATATCTACAGTTCAACACCCTGAGC

Coding Potentia
Explanation CPC Score
noncoding -1.1132
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0017100.1 1 13713286 A G
Osa01LNT0017100.1 1 13713268 A G
Osa01LNT0017100.1 1 13713375 A G
Osa01LNT0017100.1 1 13713408 C A
Osa01LNT0017100.1 1 13713729 G C
Osa01LNT0017100.1 1 13713738 C G
Osa01LNT0017100.1 1 13713824 T C
Osa01LNT0017100.1 1 13713982 A G
Osa01LNT0017100.1 1 13714637 A C
Osa01LNT0017100.1 1 13713338 C A
Osa01LNT0017100.1 1 13714982 G A
Osa01LNT0017100.1 1 13713172 C T
Osa01LNT0017100.1 1 13713324 T C
Osa01LNT0017100.1 1 13714878 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
Osa01LNT0017100.1 osa-miR168b Cleavage 3.0 23.257 1 21
Osa01LNT0017100.1 osa-miR413 Translation 4.5 24.437 1 21
Osa01LNT0017100.1 osa-miR1432-3p Translation 4.5 20.298 1 21
Osa01LNT0017100.1 osa-miR827 Translation 4.0 14.086 1 21
Osa01LNT0017100.1 osa-miR2866 Translation 4.5 21.426 1 20
Osa01LNT0017100.1 osa-miR2863c Cleavage 4.5 12.659 1 24
Osa01LNT0017100.1 osa-miR172d-5p Cleavage 3.5 22.984 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0017100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0017100.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0017100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0017100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0017100.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0017100.1 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