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

>Osa07LNT0388800.1

CTTAGCCATCCTATACATATTTTTCTGATGTGTCTACTTCCATTACATGGCTTTTACAGTGGTCATTCAATAATATCGATGCCTTGTTCACAACAGAATCTGCGAAATCAGTTGGCCGCCACATTTTACCAAATTGGCCAGATTTGTTTCATTTCTCTGACATTCACGAAACTGAAAACCATAGCTTCCGGCCTCGAATGCAATCTTCAACGATGCAAACTGCCATCTGCCAAATCTTTCCTACCGAGGAAAACCATTGCTACCACCAGAATATCTGAACTGTGGCATCACATATCCTCCTTCCGGACGAGGACGGTATACAGTTTGTGGCACATTGAATGGTGCAAATGACGCTCCAAGTTGATCCAGAGGATGGTGGTGTACAGTTTGTCGCACATTGAGTGATGCAAATGATGGAAATTGATTCGGTGTGTTTCCCAGATAATAAGCAGGTGGATGCGAACCAGCCAATGCCGCATTTGGATGCTGGAAACCCATCCTAGGGTGTGGGCATGCCGTTGATCTGCCATCTGCGTGAGGTTGCGAGGCATTGCCAACTTCACGGAATGGAGGTGGCCTCTGGGGCCTCACGATCTCAAAGGGAGACTGCTGCACTCCAACCAGATATCCATGACTTGCCTGCATATCATAACCTGAACCTGCATTCCTTTCTCCGAATTGAGCATGGCTGCCACCAGCGAGATTTTGCTGGGAATCAGCTTTCCTTTCTCTCATCCTAGCTCTGTTGGTGCTGCGATCACTTCTATCCAGCCGGGCACGACTTGTCTTCGTGTTCTGACCACCAGCGAATTGTTTTGCGGAAGACGATTGGCTCTCTTCATTCCTGGATCTTTTTGTGGGGAGATCAGGATTGGAGGACTGCATAACACGCTTCTTGCCTTTCTTGATACTGCTTCCACTATCAGGCCGTCCTGCTTGAGATTGATGTTTTCCCTTTTGCGTCGTTTTCTTGCTGTTTCCTGCAGCATCAGGTCTACTCAATGCACGAACACGCCTTGCAGCATCTCCCCTGCTGTGCTTCTCATCTAGAGCCTTCGATCTATCTGCTTCATTTAGCCAAGGCTGACGGAAAGTCATCATTCTGTAGAGATTGCGCCCTTTGACAAGTAGCAGATACAAAGGTGGTAATTTGCCTACTCCTTTGCTCCAGAAAACTTGGATAGTAAAAGTGTGCTGCTGCTTCTCTTTTCCATAACTTTCCTTAATAACACTCCCAGCTACAATTCGCTTTCCTATACATTTTGAATGCCTTTTTCCACTTTTCTCATAAACCTTCTGCTTGAATAAAACGGTATCACCTCTACAGACATCACCTTTACAGTTAATACAAAAGGATGAGCGTGGATAGATCTTCTCTGGATCCCTATCTTTGAACCTCCAATGCAACACTATTCTTTCTATGCAAGTAGCCAAGTCCCCAGTTTGGCTAAGGCCATTCTTCTTTAAATATGCTTTGCAATCAACCAGCTTAATCCCATCCAAATTTCGCCCCGCGCGGAGGAGATCGGCGATTTTTCTGCAGGAGGCCTCGCCCCGATCCACGCCTGATTGCTCCGGCTCCCGCTCCCGCTCCGCCTCCGATTCCGATTCCGACTCCTCCTCGCTCCCCGCGCCGCCGCCTTCCTCGCCGTCGCTGTCGCTGATGTCGATGTAGTAGTCCTCGTCGCTGGTGGATTCCTCGTCGTCCTCCTCCGACCCAGACTCAGATCCGGCGTCAGAATCCGACGAGATGTCGATCGCTGCGGCGCGCTCCTCCTCGACCAGCACCGCCGTCACCGCTGCGGCGGCGCGCCTCCTCGTTACAGGCATCGCAGTAAGGGCAGCGCTCCACAGGCACCCCGCCGGCGGCCGCTCTCCCTCCCTCGCCGCCTCGCCCTCCTCCGATT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.986939
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0388800.1 7 25615187 C T
Osa07LNT0388800.1 7 25612414 C T
Osa07LNT0388800.1 7 25614070 A G
Osa07LNT0388800.1 7 25614751 A G
Osa07LNT0388800.1 7 25615398 T C
Osa07LNT0388800.1 7 25615645 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
Osa07LNT0388800.1 osa-miR5801 Translation 4.5 14.944 1 24
Osa07LNT0388800.1 osa-miR5803 Cleavage 3.0 13.52 1 24
Osa07LNT0388800.1 osa-miR1860-3p Cleavage 5.0 12.02 1 22
Osa07LNT0388800.1 osa-miR2096-5p Cleavage 4.0 20.773 1 21
Osa07LNT0388800.1 osa-miR2104 Cleavage 3.5 24.953 1 22
Osa07LNT0388800.1 osa-miR2104 Cleavage 4.5 11.234 1 22
Osa07LNT0388800.1 osa-miR2863c Translation 5.0 16.292 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0388800.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0388800.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0388800.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0388800.1 7 nan Physiological trait Eating quality R1245 RM234
Osa07LNT0388800.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0388800.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0388800.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
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