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

>Osa07LNT0372000.1

GCAGTTCTATTTTCTCTACATTTTACTTCCATCTTAACGTACACCTTTTACAGAGCGACTTGCTACTATGAAAATGTCCAGTTATACTCGTCCAAATTTTCCTTGGCCGCTGCACTGCGGTTCATTCCTATGTTGATCTGGTGAAAATATATACAGTTAGTAGGTTACACTTACACGAGCTTGTTACGTACTACTTGTCAGTGTATCACAAGCATCGGTCACTGGAAACGATCTACTCTTCTGGCCTGTTGGCGGGAGCTAATGTTAACCCTCTCATCTCGCAGCATGTTCATGCTGGGAGCCAACAATCTTGTGTAGCGATCAAAATACAGAAGCTGCTTCATCAGAAGAGCGAATTCGCGAGGAAATTTCAATCCATACGACTCGCTGACCCTCACCAGATCAAGAAACAATGCATTCATCTGTCTCTCGTCAACGACAACATTAGCCGATACTGCTGTAGCATCAGGAGTTCTTGCTGTTGCAACTATGACTTCAGTATCCAAATCCTGCGCACAAATGAGAATGCAATTGAAAATTAACCACGAGATAAGTGGTAAAACACTAACTAAAGAACGATATCCAAATTTGACTAGCCAGTAGCCACAAAAATTCCTGTCCATAAGCCACTTTTGCTTGCATTCAGCATTTTACTACTGCCAGACCAGCGCCGTGTTTAGTTCCAAAGTTTTTCTTCAAACTTCCAACTTTTCCATCACATCAATACTTTCCTACACACACAAACTTCCAACTTTTCCGTCACATCGTTCCAATTTTAACCAAACTTCCAATTTTGGTGTGAAACACAGCCCAGGTTTCACCCTGGCATCATTTTTGGCACTTCAACAGTCGAAATTGGGTCACCATGTTCACGGGATAACCAGGCCTTCATGACATCAAATAACCTACTATTTTGGGAAATATTACCTGTATTGATGAGAATATTTTTTCCAAGTCCTTTGCAAATTCATTAACATTTATATCATTCCCTGTAGCACCCATTTCAGAAAGGGCTGATGCCATAGCATTATAATCGTCAGTTGCAAATGAAGCCAAAAAGACCTCCATTGCAGCCCAGGTCCTTGGCGATATCCGGCCAACAATTCCAAAATCAAGAAATCCAACACGTCCATCTCGGAGCAACCATAAATTTCCTGCATGCACATCTGCATGGAAGGATTCACATGAAATCAAGCTTCCAAACCTGCACATTTTGCACATATGTCAACATGCCTATTCTGAGGATTGAATAAGGCAATGAATGGCAGAAATACCCAAATATATGATGTATGGAATCACAAGGACGCATGGAGCATACCAGACATTAAGTGCAGTGACTAAAGTCAGCTCAGGATCAGGAACAAGAGACCTTATAGAATCAAGGTCAGTGAGTGGAACACCGTACAATCTTTCCATAGTTAGGACACGCTTTGTGCTACAGTGGCGATACACAAAAGGGGCTTTGGCCTGCCTGTCAAATCCCATTGCATCGATGTACCTCTGAAAAGCCTCAATATTCATAGCCTCTTTCCTGAAATCAACTTCTTCAAGCATAGATTCCTTTATATCCTTGACAATTCCTACCTATAATATAAAATTCTGAGCATAAGGACATCTCTTATTATATTCTTCTATAACTTGTGATACCACAAAATTTGGATAACCAAGTATACAGAAAATTTCATGATTGCTATATGCTGTCTCTACTTCCACATATATGAACTACAAAGTATAAAGTATTCATTTGTTTCTGGTTGTGTGAACTAATTGTTTTTTTTCCTTTTTAGTTATAGTACGTGAATAATATATATAGTCAACTCCTCATGTCACAAGCTCAAGATATATTGTGCTCCACCATGAAATATTCCTTATTCGATATTCAATTTTTTAGTGGGATATCCATGCAGTTGCATGATTACATTTAACAATAATTCCATTTGCTATAAAGCTCTTATATCAATGATTAGAGGTGCAGTTGTATTTGTTACACAACTATAACAACTATAGTTAATCTACTAGGTTACAATCTAGGTCCATCAAAACAACACGCAAGTGGCAAGACATTTCTTTCTCTCTTGATTATTGGGAGAATTTTCTGAATTTTCTGTTAATCTTTTAAACTCATATTTTTTCTGATCTTAGGAATATTGTGGTGCCTTCAATCCAACTAATAAATTTTAAGGATATAGATATTAAAAGTTTCTGCACCTAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.342284
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0372000.1 7 7153308 T C
Osa07LNT0372000.1 7 7153459 A C
Osa07LNT0372000.1 7 7153653 C T
Osa07LNT0372000.1 7 7154493 G A
Osa07LNT0372000.1 7 7155204 T C
Osa07LNT0372000.1 7 7155389 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0372000.1 osa-miR5143b Cleavage 4.5 18.626 1 24
Osa07LNT0372000.1 osa-miR395u Cleavage 5.0 9.207 1 21
Osa07LNT0372000.1 osa-miR1850.1 Cleavage 3.5 5.542 1 21
Osa07LNT0372000.1 osa-miR1850.1 Cleavage 4.0 4.13 1 21
Osa07LNT0372000.1 osa-miR5143a Cleavage 4.5 18.626 1 24
Osa07LNT0372000.1 osa-miR5148a Cleavage 4.0 17.883 1 24
Osa07LNT0372000.1 osa-miR5148b Cleavage 4.0 17.883 1 24
Osa07LNT0372000.1 osa-miR5148c Cleavage 4.0 17.883 1 24
Osa07LNT0372000.1 osa-miR395u Translation 5.0 14.008 1 21
Osa07LNT0372000.1 osa-miR2873b Translation 5.0 14.768 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0372000.1 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0372000.1 7 hwd2 Physiological trait Lethality nan nan
Osa07LNT0372000.1 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0372000.1 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0372000.1 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0372000.1 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0372000.1 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0372000.1 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0372000.1 7 qah7 Physiological trait Flowering R2401 C1226
Osa07LNT0372000.1 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
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