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

>Osa07LNT0370800.2

ACGGAAAAATACGACATGTAACCATAGTAATAGCATTGAAGCATAATGCAAGGCTATAAGCTAAGGAAGCAATTGTAGTAGTGGATGGAGGGAGGCACAGTTTAACGCCTTACGAGCTGTCTAGCGAATTTATTTATTTATTGAACTTAGCTGCCTAGCGAATTTAACCCATGGTAAGAGAATATGTACGCAGAGTTTAACCCCTCTGAACTGAATATCGTGCCAAGTTGAGCGAACGCCAAATAAATCAGCTTCAGTTGATGCAGCAGACAGCAGTTCTGATTGCCATCTGTCCTTGGCACCATCTTTGCCACTGTTTGCTGATAATGCGATGAAGAGTAGATAGTAGTCAGATGTTGCAGTTAGCGATATCTATTGACTACCACTTCCAATGGTTGCTGTGTTATCACCATGTCACGTATTGAGCTCATATATTCCCATGAGTCCTACAACCAAAATAGAGGGATCTAAAGAGGTCTTGTGTTCTTCCGGAGCCAGTCGAGAGAATGGCCACTCAACAAAGGGGAAACCTTTTCCCAGACTTCGTCATGGTATTCATTGATCCAATTGATCTCCGAAGGTGATAGTAAGGACAAATCAACAAGCTTGCTCTGAATTGGAACAAAAGTTAATTTTTCAAAACCAAGGTACGAGACGCCACCAAACGAATTTGGCAAATTAACCTCTTTGACCAGAAGAAGATTCTCTATACGAATGCCAAAGGAATTGTCTTCGTAATAACCAGGCTCATTGCTTACGATCATGCCCTTCTGTAAAGCTGTCAAATTTCCATATCGATAGCTTATGCTCTGAGGGCCCTCATGGACATTTAGTGCAGCTCCAACTCCATGACCTGTGCCATGTCTGTAATCCAGCCCAATCTTCCACAGAGAAGAGCGTGCAAGAACATCTAATACAAAGCCAGGAGTTCTCTCTGGAAATACCGCCTGATCGAGAGCTATATGTCCCTGCAAAACCCTTGTGAAGCATTCCTTTTGCCTTGGGGTTGGCTCACCAAAGTGAACAGTCCTTGTTATGTCAGTAGTTCCATCAATATATTGAGCACCACTATCTAACAGAAAGAGATTGTCGCTTCCGACAGAGCTGCAGCTCTCTGGAGTTGGTCTGTAGTGTATTATAGCACCATTTGCACCATAACCACTGATAGTGTCAAAGCTTGTATCTATAAAGCCATCTTGCTTTTGACGAAATTCAAGAAGCTTTTCAGCAACTTGCACTTCTGTAAGTGGTACACTTTCACGAACTTGCCCTTCTAGCCAGCACCAGAATTCTGCTAAAGCAGCAGCATCTCTTAGGTGTGAACTCTTCATACCCTCAACTTCTGCTTCATTCTTAACTGCTTTGGCTAGGGTGGCTGGTGAAACTTTGTATAGAGCATTTACAGTTCCATTCTGAACACCAGAGCTTCCAGTAGCTGGGTCACCTTGAGATGATTCTTTTCCAATTTGTCTCCCTGCTTTTCCTCTCTTTTTCACGTATCTCTCACAGCTTGATCTAAACACATTAACTATGGCAGCATTTATACTTGAAGAATCCAGCCAAAGCTTTGCACCATTCTCTGCCAATCTCTCAACATCGGACAAAATCGCTTCATATGGTTTTAGTTTTACTCCAGCCTTTTCGAGGTGCTCTAAAACATCTTCAGATACTTTGTTGTTATCCACAAATAATGTAGCAGCGGTATCCTCCACAATAAGGTAGCTATAAAATACAGGTGAATTTGGAACATCACTTCCTCTCATGTTTAACAACCATGCAACTTCATCAAGCAACGAAATGACCACAGCATTACACCCATTTTCAGCAAGCTGTGATCTAACAAAGGACAATTTTGATGGCACGTCAACGCCAGCATATTTGATTCCATGCACTCTAGTTTGTTCTTTTGGGGGCTCTGGCCTTGATTCTCCCCATATTTCATCAACTAGATTCAAATCCTTGATCAAAACTAACTCATGGTTCTTCTCGGAAATAGCATCTTTTAGTTCTTCAGCGGGTCAATGCCAACTCGGCAACCAGATGGTAACACCTCGTTCAACCATTCGCTAGTGGTAGGAACACCTTGATTTCCACTGCGCATGAGTGTCCAATCATGGCTCAGTTCTTTCTCAGCCTGGAGAAAGTACCGGCCATCAGTCCAGAGAGCAGCTTTATCTTTTGTGACCACAGCCGTACCAGCACTACCAGTGAACCCAGTCAGGTAAGCACGCCTCATGAAGCATTCTGCGATGAACTCGCTGCATCAGTAGTTGTTTCCACTAATATCAACGCACGATCGAAACAGTCAATCTGCAACTGCACCATAATCACCATTGCTCACCATTTCTGCACTACTTTCTGTTGTCTCCATTAGTGTATCATCGATTCTCCGTACGGAATGATCGAATAATTGGGAGCAAGGCAGGGTGTACTAATAGACCTGGTGGGCGTCCTGGGAGGGGACGATGTAGGCGTCGATGGCGACGTCGGGCCGCGCGAGGAGGCGGCGGAGCGAGCGGAGCTTCTCGTCCTCACCACCACCAGGAGCAGCGGAGGAGGAGGATGATGCGCCGCCCCGGCGCTTGCGGAGCTCCGACGAGGGGAGGGCGACGGCGCGGCCGTCCCCGCCCG

Coding Potentia
Explanation CPC Score
noncoding -1.29509
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0370800.2 7 5695267 G A
Osa07LNT0370800.2 7 5695858 T C
Osa07LNT0370800.2 7 5698499 C T
Osa07LNT0370800.2 7 5698977 A C
Osa07LNT0370800.2 7 5692313 C T
Osa07LNT0370800.2 7 5692739 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0370800.2 osa-miR5793 Translation 5.0 20.614 1 21
Osa07LNT0370800.2 osa-miR5800 Translation 5.0 19.551 1 21
Osa07LNT0370800.2 osa-miR5827 Cleavage 4.0 11.747 1 21
Osa07LNT0370800.2 osa-miR5830 Cleavage 4.5 12.011 1 24
Osa07LNT0370800.2 osa-miR5079b Translation 4.0 18.024 1 22
Osa07LNT0370800.2 osa-miR319a-3p.2-3p Translation 5.0 18.619 1 20
Osa07LNT0370800.2 osa-miR319b Translation 5.0 18.619 1 20
Osa07LNT0370800.2 osa-miR408-5p Cleavage 5.0 19.536 1 21
Osa07LNT0370800.2 osa-miR528-3p Translation 5.0 18.168 1 21
Osa07LNT0370800.2 osa-miR2097-5p Translation 4.5 10.074 1 22
Osa07LNT0370800.2 osa-miR2122 Translation 3.5 12.036 1 22
Osa07LNT0370800.2 osa-miR2880 Translation 5.0 17.494 1 24
Osa07LNT0370800.2 osa-miR1862f Cleavage 3.5 22.204 1 20
Osa07LNT0370800.2 osa-miR1862f Translation 5.0 23.759 1 20
Osa07LNT0370800.2 osa-miR1862g Cleavage 3.5 22.204 1 20
Osa07LNT0370800.2 osa-miR1862g Translation 5.0 23.759 1 20
Osa07LNT0370800.2 osa-miR5079a Translation 4.0 18.024 1 22
Osa07LNT0370800.2 osa-miR5150-5p Translation 4.0 24.769 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0370800.2 7 QHd7 Physiological trait Flowering RZ488 RG477
Osa07LNT0370800.2 7 qah7 Physiological trait Flowering R2401 C1226
Osa07LNT0370800.2 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0370800.2 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0370800.2 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0370800.2 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0370800.2 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0370800.2 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0370800.2 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0370800.2 7 dth7.1 Physiological trait Flowering RM125 RM336
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