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

>Osa07LNT0377100.2

CCATCCTCGCGATCTCCTAATCGCCGCACGCGCTCTGGTCTCGAAAGAAAAAAAGGAAAAACAATCTACCCTAATCGCGCCCCGCCGCCCGCTCCCAACCCTTAACCCTAATCGCCGCCCGCCGCCGCCGGGACAGCGACGCCCGCAGCCCTCCCTCACTCTCGTCCGCACCGCCGCCCGCGCTGATCTCCTCCGTGCCACTGCCGGAACACCCACGCCCACACCACGGCACCACCAATCGATTCCCCGCCGCGGCCGTTCTCTTCCGCCCGCCTGGCCGGTCTCCTTCGTGCCACCACCGATCTCCGCCGACACGCTGCTGTCCCCTCCTCCGGAAGCTCCACCGCTGCCCCACGCGGATCAACAGGCTGTTGTCCCTGGCGCCGGAAGCTCCACCACTGCTGCCCCTCTGTGTCGCACTCAAACTGTTCCTTCGCCACCAAAAGGGTCATGCATGGTGGATGTATGTATGGTTTCAGTTCATGATTTTGGATGAATAAATTAAGTTTAGGTTCTTTATTGTAGCCTTGTCTCATGCATGAGTGGGGATCATGGGGTCTCGCTCCAATGGTGCTTCAAACAGCATATGTAGGGGGTTATTTTTGCCCTTATTTTTTTTAATCTTCCTTCCTCTTTGTGTAAAAATGTAAGATACGTCTCAAAATATATTGTTTCTATTTGGTCATCAGCCTTTCCCTTGTTTGCTAAACGAATAGTATGTCATCAGCCTCGCCGTGTCATCTCGATGGCTTGCATATATACGAGGATGCGGGAAGGGCCTGTTACTGTAGGGGTGCCATAATTGGATTGGATTTCTTTTACCTTTACAGAACAATATTTTTGAACAAAAGGAATATTACTTTATTTTGATATCATCTTTTCTTGTATTGTAGGTTTTGGATTCTCAAACTCGTAGCGTTTGTTGTCTACGTTTGGACGAAGCGTCGCTCATCTTTTCATTTTATTCTTGCCTCTGAAGATAGGTACTGTGCCAATGAAGATACATGTTTGTGTGCTAGCTAAATCACGCTTATGCATTTATGCATGGTTAATTACATTGTTTGCTCTGTTAATCTACACAACCTGATGGCATTCTCTGCAATCTTAAGGGATTTATAGTTTTATGCATGATTATGCTTTTCAGATCTTTAGTAAAAAATGCTCGCCAGGGATTTAATAAGAAATGCTGGAGCACTAATTGATCCTCTGCTCCATTTGATCAAATAGTACTGTCCATTTATGCCTACACTTTTCTGATCTCATAGTATTGTGTCAAATAAATTTGATATGTAGCTTTGGTGTCCTTAAATGGCATGGTTGTTTTATACGTCCCTGTGATTTTCCATGTCATGATTTGTTGTTACCATTTCATTGAATGCTTTGCTGTTAATGATCGCTTAACAATCAGTAGGCTCCGTTGGATTTGTGCGGACTCATAAAGAAGAGGTGCTTGTGTTTGCTGGTTCATCAAACAGCTCCATCAAAGCGGTAGGGCGTGGGATAAGCCAAAGGTTTGGCTGTGCTGCTACTACTACTAACATCCATTGACATTCACTATTTTGAAGATCAATAGTACTATTTTTATTTTCGGATCAGCGGTAGGGTTCTGGACTTAAATTGCCGATCAAATGATTTGCGGATGCAAATAATGAATTTCCATATGTAGACCTGTAGTGGGCCGTATGATAATAATATATTTGGTATATTGCAGAAATGGCTTTGTAGTAAAAATTGCTCATATAATTAAGTTGTCAAATTATGTGCACCGACAATACACCTGATTTATCTACAATAACAGGTAATGCCTGATTTGTCTACAATAACAGGTAATGATGTGCCGAATTGCTCTTCAGATTCTTCATCCGATGTTATCATGTTTTTGTCAAGTGAATAAACTAAAACTGTATGACAACAGTTACGTGTTGAATCAACTAAATTTCTGACAGTAGATGTTCTTAAGTGCACAACCTAAAATTTCTTTAATTCATAAGAACATGTAACCACATTAGGTATAAAGTTTGCAAGATATCAATCTTGATGGCCTGTTGCTGCTAGGTGTATGCATTAATTCTGGTGCGCTGGATGTAGTTTGCTTGCCTCTAGGATTATATGATAAGTTAGATGTATTTTGTTGGCCTGCTGGATGTATGCATTCAGCTCCTGACTTATTCTTGATTTATTTGTGCATGCCGGATCCATGGAAGTATCAACCCACTAAAGTCTGAACTCTGAAATAAGGCTTTTGGTATACTGTGGCCTATATATTCTGCACGTCATAGAGCTTTCATGTCACAATATATGTGCAGGTTAGCACTGGATGGAAATTAATACCTCATTTGTTTTCTATCTTTTCAACAACTTTGCTCAGGGTTGGTATAAATCACCACTTAAGCAACTTTGTGATGGCATCCATCTAGCCCTATGGCAGTTACATAGAGGAATAACGATGCATTTATCTGCTTATCTTATGTAAGTGAAACGATCTGGTGGGTACAAATGATTATATGATTATGTTATTCTCCAAGTCAATATCTTGGATGATCTTATGCTGCTTTTAGTCTGCAGGCTTCGGGGAAGGTTGAGTATTCAAGCCGTGGTCAAGAGATTTTTTTTTTTTTGTGCTTATATTGTTTGACAAAATAGATATTTGGTTGTAGTGCTGACAAAAATGTTTGATATAGCATTTTCTTGATTCATGTAGATTGACAATTGATTTCACAAGTAAATGAAATAGTATATGTTTTAGACATTTAGTACACACGCTATTATCTACTGAGGAGGTGTTTTCACAGCTTATCTACAATGACTCCAATTTTAAATTCAACATTATAGCTACTATGCTAGATTAAAGAGGGTAGTGAATATCTGCTCAGAAATATTTTTGTATACTCGTTTTTATTTTATGCCGAAATTTTTGTATTGATGTCTCACTGAAATTGTTTATATATAGGAATCATATATTTATTTTCACTATGAATTCCTTGATTTATCCTGCACTTTCTTCAGAAATTTGGGTCTAATACTCTAATTTCTTTTGAATCCTACTGTTACTTGGGCACTGTTGAGAAGGGAGGGTGTTGGAACTGCCATGGAGGCCGAGCTCCAAGCGGTCTACGCGTATTCATTGCCAAGATCGGTCTCAAGCTGCAATTGTGGAGGTTTACATATTAACTACCATCCTACGGGCCTGTTAGGTGTTGTATCAATAGTTTTTTTAGTTAACCCAAATGTCAGGACTGATTGATTATGTAAAACTAAATTATTTTTAGCTTTGTTTTGTCAGTGCTAAATATGGTGATTGATGCGATCCGTAACTTTGGTTATTGCAATGTAAGATAGCAATTGATATATGGAGACAATATATAATGCATATACAAAATTAGATTTTTGC

Coding Potentia
Explanation CPC Score
noncoding -1.16456
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0377100.2 osa-miR5525 Cleavage 4.5 18.097 1 22
Osa07LNT0377100.2 osa-miR5526 Cleavage 4.5 13.682 1 21
Osa07LNT0377100.2 osa-miR5542 Cleavage 5.0 12.25 1 21
Osa07LNT0377100.2 osa-miR812r Translation 4.5 17.739 1 24
Osa07LNT0377100.2 osa-miR5828 Translation 5.0 10.217 1 21
Osa07LNT0377100.2 osa-miR6248 Cleavage 5.0 15.024 1 21
Osa07LNT0377100.2 osa-miR1850.2 Translation 4.0 11.924 1 21
Osa07LNT0377100.2 osa-miR2122 Cleavage 4.5 16.604 1 22
Osa07LNT0377100.2 osa-miR2876-3p Translation 4.0 13.746 1 21
Osa07LNT0377100.2 osa-miR2878-5p Cleavage 5.0 13.796 1 24
Osa07LNT0377100.2 osa-miR1863c Cleavage 4.5 14.155 1 24
Osa07LNT0377100.2 osa-miR2923 Cleavage 4.5 11.784 1 22
Osa07LNT0377100.2 osa-miR2923 Translation 4.5 17.225 1 22
Osa07LNT0377100.2 osa-miR5073 Cleavage 4.0 15.13 1 23
Osa07LNT0377100.2 osa-miR5152-3p Translation 4.0 19.947 1 21
Osa07LNT0377100.2 osa-miR5156 Translation 5.0 10.416 1 24
Osa07LNT0377100.2 osa-miR5337a Cleavage 4.5 11.8 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0377100.2 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0377100.2 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0377100.2 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0377100.2 7 hwd2 Physiological trait Lethality nan nan
Osa07LNT0377100.2 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0377100.2 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0377100.2 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0377100.2 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0377100.2 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0377100.2 7 qah7 Physiological trait Flowering R2401 C1226
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