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

>Osa10LNT0077900.2

AACTCCAAAATATGCACAATTATTATAGATACATCGTACGGTATGAGATGTTTATATGCTGACCAGTTGTGTATCATGATATACTGGTCACAGATAGAGGAAAAGGACCGATGGATCTTTCAGGTTTCGTTATTACGATAGCATATGTACAATAAGCATGTTAGAACATGAGCAAACATAGTTGCTTGATCTCCTTGATAGCTTTCAGTTCGGTAGCCTATTTGCCTGGATGGAAGAAGTTCTCCTTCAGCATATGCTCCCACTTCGGCGGAAATATATCATACCTGTGAACTTCGCTTTGGACTGCAGTTTTGTCATTGACTTCATCAGAAGGTGCCTTGCGACCATTATCTTCATCACTACAGGTTGCATCACCAGGAGAGTCTAGACCACTGACAGAATCTTTTCCTTCCGAGTGCCTCACAAAATTATTAGAATGCAGAATATTTTGGAACCCGTCAGCAGTGCTCACAGTGTCGCCATTTGGAGCTTGTATTTTGGCCACAACACCATCTTCATCCCAATTTGGTTGATCAGTACATGCTTCTACATGCTGCTTGATGGCATCGTCCAATGAATTTATATTATCGTCACGGCACTTCAAAATTCTCAGTCTAGACATAACAGCATTATCAATTAAATCATTTGTGCCTGTGCTTGCATCTGGCTCATGCTTGCTGCTTTCCTGACCCAATGAGTTTGCATTATCAGGACGGGACTTCAAAATTCTCAGCCTAGACATAACAGCATTGTCAATAAAATTATTTGTGCCTGTAGCTGCATCTGGCTCATGCTTGCTGCTTTCCTGACCCAGTGGGTTTACATTATCAGGACGGGACTTCAAAATTCTCAGCCTAGACATAACAGCATCATCAATATTATCTGCTCTGTTTGTGCTTGTATCTAGCTGGTGGTGGTTGTTGTTTTCCTGTTTTAGAGAGGCTATATTATCAGGACACGAATTCAAAACCCTTAGCCTGGCCATAACAGCATCTTCAATTGCACATGGTTTTTTGCTTGCTTCTTCCTGCTCTTCACAGTTGTTTTGGCAAAAAGCACGACAATCCTTCAAATTGGACTGTAAAAATTTCAATCGCTCAATCACCTCAGCATCAACACCATCAATGATGCTCCTATTTACTGCAGGAAGTTGCCCGTCACAACTATCTGCTCCCTGACATTGCAAGTTCGCAGGATAGGCAGTGCTGTTTTGTGGTTTACTATTGGGTATGGTTGAGATAAAGATTTTATTGCCTTTTGATAAGTCAACAGGAACTTGTGTGTTATTGTGATTTTCCATTGCTGCAAGCTTCACACGGGTAAGTTGAAGCTCATATTTGAGCTTACATGCTGATGCTTCTGCTTCAACCCACAAATTTTTGTAGATCGACAATTGCGAGACATCAATATCATCAAGCGTCTTATCCTCTGGGAGCTTAGCAACAGCCTTGCTTATACAGGAACTAGCATCTCTAAGATTTTGAATCACTAATTGCAGAAGTTCCTCTTCATATCCCTGTAATGGAACGCTATTGCAAGTGGACAGAAGCATTGCCGATAAATCATGCATTTGTTTCAGAAGTTCTGCCCGAGACTTCGATCTTGATTCAGAAGACGTCTTCAACATGCTCCCCCCAGAATCTGAATAATAGCGAGGCTGCTGACCTCCTTTTGCACATATTTGAGCCTGTGTGCATTCCTCTGCCCCAGCTGCTTGAGAACAAACATTAACATGTAGGCTTTCACTCAGATTCTCAACAAGAGCCCTAGGAGCACTGCCAAGAGGACTAGGCCCTTTGTTAATTGATTCTTCAGTTATGCTCCCAATATGGTTGGAACTATCCTCACCTAAGAGTTTGGCTTTGCTGACTGAAAGGTTTTCCTGTTGATTCGCAGCTATCATGTTCTTACAATCTCCTGTAGAATCATAGCATTTCTGTCTTCTGGAATTTTGTTCTTCAGGAAAATAACTTGCATTGTTACCAATACCATTATGAACCCCAATACAGACCGGAAGTACTTCTTTATTATCTTCAGTGTTTTTACGTGTCTCGGGCAACTTGAATGTCTTCAAAGCATCACTTTTGACACTTTCAGAAGCTGATACTTCCTGATGTTTGGAGAATAGCTCTGAATACTTTAAACTCCATTCGGGTGATTGCTCGATTTGATAACCACCTACCCCATTTACAGAGTGGGAATTGTCGGTATTTTTCATAATACCAAATGAAGGAGGATATGCAATAGGTGCACCCTTCCAACAAGGTGAATCAACAGTGGGGTTATTAACCTCAGGCAACTCGGATGAAAATTCACGAGACTGAACATATCCAACCTCAGATGGAGAAACTTTGGAATTAAAGCTACCCCGGTCATATTTCATCTCTGAAGATTCCTGTATAGGTCTCCCATTTCCAAAACACCTTGCAGCACGGTGATCTGCTCCAAGAGAATTGAGCAAATGGTCTCCCGCATTGCTAGCAGAGCTGCTCCATTTTCCATGGTGTTTATCAGTAGTCTGATGCCCAAGATCTTTTTGTTCATTCCACATGCAATCAAAATAATCAAGGTTGATTCTACAAGGATTCATATATGAAGAAAAGGATGAAGAACTTTCCCCAGTATTTTTATTCATCACTGGAAACATTTGTTCGACCACTTCAGAAGAATTGGCAGGTGGCGTCCACATGACAGGAGGTGGCACATTTGTTGAACATGATGAAAGCTGTGTCATGTATTTGTCATATGCAGGATACTGAGGAGGATACTGTAATAAACCTCGCTGTGTAGGATAAGGTTCTGCATCTTCTGATTTATGCACAAAGGTATTCTGCTGCGGACTAAAAACTGATGGCCCAACACCACTGGGCAGAACCTCTGAACTTCCTAGCCAAGTTCCAGGACCTTTTGCACTTGTTAGTTGTGAGCTCTCTGATCTCAATGGACGTGTAACCATAAAGTTACCAATTTGACAAGTCCCAGGGAATATACCATATGGTGCAGTTTCAGGAGCTTCACCTATATAATATGTTTGAAGTCACCAAAAAATTATTAGGCATGGCATGCTTTGGTTAAGCCAGGCAGCAATATCCCAATCAAATTATACACTCACCAAAAGCTCCTATTAACAAAGATAGAGCTTATGTACACATAAGCTCATTGTGTGTGTTTTTTACGCAAAAGGCAGAGGAGAGTCTGCCTTATGTCCATTGCATTACTGGAGAGTCAAAGAGTTATATTACCAAGAGGCAAAAAAAAAAA

Coding Potentia
Explanation CPC Score
noncoding -1.10014
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0077900.2 10 20930204 G A
Osa10LNT0077900.2 10 20930546 C A
Osa10LNT0077900.2 10 20930792 T C
Osa10LNT0077900.2 10 20931494 T A
Osa10LNT0077900.2 10 20931936 A 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
Osa10LNT0077900.2 osa-miR5814 Translation 4.0 13.667 1 24
Osa10LNT0077900.2 osa-miR167a-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167a-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167b Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167b Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167c-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167c-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR396c-3p Cleavage 5.0 18.734 1 21
Osa10LNT0077900.2 osa-miR396c-3p Cleavage 5.0 19.04 1 21
Osa10LNT0077900.2 osa-miR166l-5p Cleavage 5.0 17.058 1 21
Osa10LNT0077900.2 osa-miR167d-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167d-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167e-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167e-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167f Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167f Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167g Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167g Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167h-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167h-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR167i-5p Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167i-5p Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR169f.1 Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169g Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169h Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169i-5p.1 Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169j Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169k Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169l Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR169m Translation 5.0 17.06 1 21
Osa10LNT0077900.2 osa-miR172a Cleavage 4.0 12.504 1 21
Osa10LNT0077900.2 osa-miR172a Translation 4.5 12.765 1 21
Osa10LNT0077900.2 osa-miR172b Cleavage 5.0 12.504 1 21
Osa10LNT0077900.2 osa-miR172b Translation 5.0 12.765 1 21
Osa10LNT0077900.2 osa-miR172c Cleavage 5.0 12.504 1 21
Osa10LNT0077900.2 osa-miR172d-3p Cleavage 4.0 12.504 1 21
Osa10LNT0077900.2 osa-miR172d-3p Translation 4.5 12.765 1 21
Osa10LNT0077900.2 osa-miR167j Translation 5.0 19.984 1 21
Osa10LNT0077900.2 osa-miR167j Translation 5.0 20.996 1 21
Osa10LNT0077900.2 osa-miR528-5p Cleavage 4.5 11.771 1 21
Osa10LNT0077900.2 osa-miR395v Translation 4.5 19.024 1 21
Osa10LNT0077900.2 osa-miR395v Translation 5.0 19.468 1 21
Osa10LNT0077900.2 osa-miR1864 Cleavage 4.5 16.9 1 24
Osa10LNT0077900.2 osa-miR2093-5p Cleavage 4.5 20.275 1 20
Osa10LNT0077900.2 osa-miR2095-3p Translation 5.0 16.641 1 20
Osa10LNT0077900.2 osa-miR2095-3p Translation 5.0 15.817 1 20
Osa10LNT0077900.2 osa-miR2878-5p Translation 5.0 12.735 1 24
Osa10LNT0077900.2 osa-miR5497 Cleavage 4.0 13.388 1 21
Osa10LNT0077900.2 osa-miR2918 Cleavage 4.0 20.184 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0077900.2 10 nan Physiological trait Sterility RZ811 RG561
Osa10LNT0077900.2 10 nan Morphological trait Seed RZ811 RG561
Osa10LNT0077900.2 10 qRf-10 Physiological trait Sterility RZ811 RG561
Osa10LNT0077900.2 10 Rf1 Physiological trait Sterility nan nan
Osa10LNT0077900.2 10 nan Morphological trait Panicle/flower RM171 RM333
Osa10LNT0077900.2 10 nan Physiological trait Sterility C701 C16
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