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

>Osa07LNT0386200.1

GAAGAATACCGGTTTTCCAGCTCGTTGTAACTTCTAAATTAACCATATTTGGAATTGCCAAGTCAATTGTATCCTCCTCAGGTGTGGGAAGAAATTGATGGCATGAATGTGAAATTTGTATATTAGAAAGAATGATCTGGCTGAATTAATTTGATAAGCCAGTAGTTTCAGAAACAGTTTGTATCGTCGCTGACAACTTCTTCCGGATCTCTAGCTCTTGTTGTCTCTTGAGATAACTTTGTGCTGTAGAAGTAATTATCTGAACGATGAAGTTCATGATCAAAAGCCACACCACGGTATTCCAGATCAAAGAGAATGATAGATTCCACTTCGTTTCCTTCACAACACTTGATGCTGATGCAGCAACACTGGATGATAAAAACTTGCTCTTGGCTGTCTTCAACTTGGCAACTAAAGAGGGAAGGACGGATGATACCATAGGAACATTGCCAAATACCCACATAATTCTTTTCTCCACCAAATCAAGAAGTTGGTTATTGCAGAGAGTAATTACTAATGTTGTCTGGATATAAACCTTAATAACAGCCTTTCCAATTAAAGTTGCTAGAAAGAACTTCCAGAATGGGATGTTAAATTGCCCACACAAAATGCCAGCAAGATCGAAGAGGGGGTTTGGCACCGAAGCAAGTAATAAGATGGTAGGGAAGTTAAGATACTGTGAGTGAGACATAAGCCATCTTTTAGCCCGATGCAGAGTTGAGGATAGAAAACCTTCTCCTGAAACGGAAGCATCCAACTCTTCCAGCTCATCTAGTTTGCGTCCTGACATGCTAGCTGCTCTCGAGAGGAAATATGGAGGAAGTTCTCCAAGTGCAGTTCCAATGCCCCAGAGAACAGCTTCAAGGTGAACTTCATGCAGTATTTTGCTAAATGGAATTGTTTCCTGGTACATTGGCGGTCCAAATTCTAGACAGTCTTTCTCCAACCATGAAGGTCTCATTTTAAGGAGAATAGTATCATAAGGAGCACTCTTTAAATCAGTCCGACCGCAATGAACTGCCTTGATTGTAAAAAGGGCAATATGAGGCCCTAAATACAATACAAATGTGTGCAAACCAGAGCCTAACCCAATGGATGAAGCCACCCCTAGTATGACCCACCATAATCCAAATCTGATATACCAAAGCAGCTCCTGAACATGCTTTTCATGTGGACCGTTAGTTAACAAGAGCGGAGTACAGGCAGAAGCAACCAAAAGAACCAAGAACTTCAACCGAGCACTATCTTTCAGAACACATAAACATGTGCTTTTTATACTCTGTCCAATGGCTAATGCAAATAACGCCAATGTTCTGAGTGGCTGCGATGTTAGCGTTAATCTCTCCAGGTCAAATTGATGCTTTTCACGAAGGTCGGACAAAGCCTGGTCCTCGCCGGCAGCGGCGTCGTCAGCGGCGGCGGGTCCCATCTCGCAGCCCTCGGGGTCGACCCCCACCCTGCCGCCTACTAGATCAGATCTCCGATCTCTCCGAGTACGCCGCTATATACACCAATTGGAAAAATGATGAGAACGAGAAGAAGGCGCGAGCAGAAACGCGCGCCCCCACGCTTCTCCGGAGGAGGAGGAAGGAGGAAGATCACGAGGATGACGAGCTCGACGAATCGCGAGGCGCGCAAAGGAATCGCTCTTTTTTTTTTCTCCGAGCGGAAAGATTGGGGTGCTTTTTGGGCGAGCGGAACGGCAGCGCAAGGGTGAAGAAAGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.929782
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0386200.1 7 23074164 A C
Osa07LNT0386200.1 7 23070017 C A
Osa07LNT0386200.1 7 23070048 G C
Osa07LNT0386200.1 7 23070549 A G
Osa07LNT0386200.1 7 23070745 G A
Osa07LNT0386200.1 7 23072029 A G
Osa07LNT0386200.1 7 23072463 A G
Osa07LNT0386200.1 7 23072499 C G
Osa07LNT0386200.1 7 23072935 T C
Osa07LNT0386200.1 7 23073493 C G
Osa07LNT0386200.1 7 23073574 T A
Osa07LNT0386200.1 7 23073627 T G
Osa07LNT0386200.1 7 23073822 T A
Osa07LNT0386200.1 7 23074178 T G
Osa07LNT0386200.1 7 23074535 C T
Osa07LNT0386200.1 7 23070446 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0386200.1 osa-miR5534a Translation 4.5 17.247 1 21
Osa07LNT0386200.1 osa-miR5534b Translation 5.0 17.247 1 21
Osa07LNT0386200.1 osa-miR5537 Cleavage 4.5 15.017 1 22
Osa07LNT0386200.1 osa-miR6256 Cleavage 4.0 9.559 1 22
Osa07LNT0386200.1 osa-miR156k Translation 5.0 14.278 1 21
Osa07LNT0386200.1 osa-miR159e Cleavage 4.5 17.287 1 21
Osa07LNT0386200.1 osa-miR414 Translation 4.0 24.472 1 21
Osa07LNT0386200.1 osa-miR159c Cleavage 4.5 17.287 1 21
Osa07LNT0386200.1 osa-miR159d Cleavage 4.5 17.287 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0386200.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0386200.1 7 grb7-2 Morphological trait Seed RM505 RM336
Osa07LNT0386200.1 7 Ph7a Morphological trait Dwarf RG650 C285
Osa07LNT0386200.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0386200.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0386200.1 7 Ra7a Others Others RG650 C285
Osa07LNT0386200.1 7 nan Resistance or Tolerance Other soil stress tolerance C451 R1245
Osa07LNT0386200.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
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