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

>Osa07LNT0367000.2

GGGTATAAAAGGAAAACGATAGCCGGACAGAAAAATCCATAACATTTTTTACCCTACTCCAAGTAACTCACGCAACACTCACTGGTCTAGTATATCATAGACACATGAGTGACAAATCATATTATCAGCTCTAACGTGGCAAATCTTCAATTCACCAAACATCTACTACTACGTTGTTTAGCTCCAAATATTTGAAATAGCTTAGAATTTTCTATCACCAAGCCTATCATAGAATCACTCATATTTCATATAGCAACTGGAACGAAGTTTTGCTCATTTATTCCCGGTATATGAATGGCTCAGAGTAACAGTTCTAGCGTTCACGTTTATTTTTGCATTCAACTCGTGTATAACAGTCCTGAGTCTTCGCCGTTCAATGCGCATTCAGTGGTAACGCCACGACTTGCCTTGCTGGACTGGGAGTTGAGTGGAAGTCACTGAACCAGCCAGTGAGTCAGCCAGCAACTTGGGAACGTCTGTATCATCAAATGCAGACTTGAGGTGGAATCAGTTTCCCTGGATTCATGATATTGTTGGGATCCAACGCAGCCTTTATTCTTTTCATCGTCCTTAGCGACTCGATGCCCAGCTCTTTCTCTAGGTACTTCATTTTCCCTGTACCTACACCATGCTCTCCTGTACAGGTACCTTCCATAGAGAGAGCAGTATGAACCATGAAATGGTTTAGCCTCTCCGCTTCACGTCGTTGGTCTTCTTGACTAGGGTCAAATAGGATTATTGTGTGGAAGTTTCCATCACCAGCATGAGCGATAACCAAACAAGTCAATGGTGATGCATCAAGCTTTTCCTTTGAGACAGATATGCATTCTGCAAGTCTAGACAAAGGAACACAAACATCCGTTATCATAGCCTCATGATCAGGTTTCATGGCAAAACCGGCCCAAAGTGCTTCCTTCCTAATCTTCCATAACTCCTCTTTAGCATCCAGCTCTTCTACAAAAACAAAATCAGATCCATGGTGTTCTGTGGCAATCTTTTGAACCAATAGTGTTTGTTCAAGAGCATAGGCTTCTGTCCCTATGAATTCGAACATCAAGGTTGGTACTTCAGGTAAGTTTTTACCATTTGCCATGTTAATTGCCCTTATCTGAACCTCATCCAACAATTCCACTCTTGAGACCTGTATACCAGAAAGCATTGTTGCAATAGCAACATCAGCAGCATCCTTAATTGTTTGAAAATTGCACATTGCAACCACGGAATGAGATGGAAGCTTTTGAAGACGTACAGTCACTTCTGTAATTACCCCTAAAGTTCCTTCACTTCCAATGATCAAACGAGCAAGATCGTATCCAGCTGCACTCTTTCGGGCTCGAGAACCCGTCTTGACAACATCACCATTAGGTAGAACAGCCTGGAGGTTAATCACATTGTCCCGCATTGTTCCGTACCTCACAGCTAGTGAACCAGAACAGCGAGTAGCACACATTCCTCCAATAGTGGCCCCAGGCCCTGGGTCAAGAGGGAAAAAGAGGCCATATGGTTTCAGGTACTCATTCAGCTCAATCCATCCAACTCCTGGTTCAACAACTACATCCATATCCTCAACATGCAGGGATTTGATTTTCTTCATCAAAGACATGTTAATGCAAACACCACCATGAGGTGCCAACGTGTGACCCTCAATTGATGTAGCCCCACCATATGGTACAATTGGCACCTTGTACTTGTTACAAGCCATCACAATCTTCTGTACCTCATCCTGGGACCTCGGGAAGACGACGACATCGGGCACATTGACTGCCTTGTGGAAGCTGTTCTGCGGCGTGCCATGGTAGTGCCTCTCCTCGTAGTCCACCGTCAGGTTCTCCCCGAGGAAGGAAGCGAGCTCGTCGATGAACTCGTTGGGCACGCGCTTCCGCTCCCCGCGCACCACCAGCTCGGTGCTCTCCTTGCCCCCGACCCGGTGGTCGATGCCGGAGTCGCAGAGGGCGACGGTCGTTCCTCCGGCGGCGGCGGCGGCGGCGAGGAAGGAGAGGAAGGCGGGGAGGCGGGCGTGGGAGGAGGAGGAGGAGGGTGGGGTTTGGGAGTGGGAGTGGTGGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.785765
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0367000.2 7 3368433 C T
Osa07LNT0367000.2 7 3364329 A T
Osa07LNT0367000.2 7 3365461 G A
Osa07LNT0367000.2 7 3365660 T C
Osa07LNT0367000.2 7 3366090 G 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
Osa07LNT0367000.2 osa-miR5811 Translation 5.0 22.363 1 24
Osa07LNT0367000.2 osa-miR6247 Translation 4.0 21.324 1 21
Osa07LNT0367000.2 osa-miR395b Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395d Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395e Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395g Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395h Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395i Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395j Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395k Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395l Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395s Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395t Cleavage 4.0 15.829 1 21
Osa07LNT0367000.2 osa-miR395c Cleavage 4.0 15.829 1 21
Osa07LNT0367000.2 osa-miR395a Cleavage 4.0 15.829 1 21
Osa07LNT0367000.2 osa-miR169q Cleavage 5.0 14.738 1 21
Osa07LNT0367000.2 osa-miR171i-3p Translation 4.5 21.257 1 21
Osa07LNT0367000.2 osa-miR395m Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395n Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395o Cleavage 3.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395p Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395q Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395v Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR395r Cleavage 4.5 15.829 1 21
Osa07LNT0367000.2 osa-miR1440a Translation 5.0 6.996 1 20
Osa07LNT0367000.2 osa-miR1863c Translation 4.0 15.464 1 24
Osa07LNT0367000.2 osa-miR395y Cleavage 4.5 15.829 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0367000.2 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0367000.2 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0367000.2 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0367000.2 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0367000.2 7 qSNC-7 Resistance or Tolerance Salinity tolerance C1057 R2401
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