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

>Osa02LNT0159400.1

GGAACCAAAAACTTTTTGTTATTTATTACCACATAACTTTTGCTTGTCTCTGTTTGGTCGAGTGATACTTCTTATTCTCTATCGGTAACTTTTTTTTTTCCAATCCCTGTATTACAATACAACAACCAAAACACAAACCAACCCTCCAAGCATTATTAGCCACAGCCTCGATACCATAGCAACGAAGCATAGTGACTCAATACAGAAAGTACCATAAGAGATACTTCCTCCGTTTTACAGGTCATTCTAGCATTTCTCACGTTCATGAGAAATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTACTACTTATCTTCTCCTAGGCACTAAACCTCTCTCTGTCGTGTGGAGCGTTGTAATCGATGTTAGGGCCTGCAGGGATGATCCCGTAGGGATTTATGGACGGATGGCTTCCATAGTAGTGCTTTCTTATGTGCTCCATGTTAACCGTGCTGCTGATGCCAGGAATCTGGTAGATGTCCTTGGTGTAATTGAACAGATTGGGGTATTCCCTGAGGAGCCTTTTGTTGCATTTGAAGTGGACAGCATAAACCTCATCAAATCTTATAAGAGTTACAAACAAGCGAACATCAGCCTCTGTCAACTGGTTGCCACATATATAACGTTGCCTGCTTAGAATTTCCTCACATTTGTCCAGAGCCTCATATAATCTCGTGACAGCCTCATCATATGGCCCCTGTTTCTTGGCAAAGCCACATTTGTACACGCCGTTGTTTATCGCATCGTATACCAACTCATTGATCTCATTGACGGAGGTTTGCAAATGAGCAGGATAGAGATCCAGGTCAGGATTCTTTGCGATCTCGTTGAACTCAGTGTTGAGCATTCGGATGATCTCTGAGCTCTCATTGTTCACCACAGTCTTGAGCTGCTTGTCCCACAGAACCGGAACAGTTGGTTTCCCGATGTAATTTGGGCTGGCAATCTCATATAGCTCCCTGATGGTCTTGGCTCCGTTGAAAGGATCCGGGTCTGCGCCGGGCTCTTCGTCTCCGGTGGCCGGAAAAACCCACCCAAGATGGTCGTCCGTCTCCCTGGTCCTCTCAAAGATGGGCTTCACAGAGGTGAAGCCGATGGCGTGGTCGAGGCCCTTGAGCTTGAGGTAGGCGAGGCAGCGTGACGCCCAGGGGCACGCGTAGGAGACGTAGAGGTGGTACCTCCCCGGCACGGCGGGGAACCGGGCGGAGCTGTCCCTGGAGATAGAGCTCCGGAAGGTGGACGGCGACCGGTCGAAGGCGCCGGCGTCGGTGACCTCGTCGAGCGCCGACCGAGCCATCTTGACGGTGGTGGAGTTGCTGCCGGTGGCGGTGGAGAGCGTCCGGGCGGCGGCGGCGGCGGAGAGGCGGCAGGGGAAGACAAGGGGCGACGAGTGGTGGGGAAGACGAGTGAGCATCCGACCGGGAGAGATCCTGGGATTCGAGTATACGGAGGATTAGTACTACTCCATATTGGAGCAGTAACTACTAGTGAACTTTGTGCGGGAAAGCGGGCAGGTGGTCACGGGGGATGGTAGTTCCAAACTGGTAGTTGCTGTTGCTGCTTGATGGATGTGGCCGGGTTTTATGGGCAGGTGCGGTGGCGGGTGGTGGGTTGCCTGGAAGGAAGTTCCAGTAGTGACGTAATGGCGGCGGCAGCCGAGCGGCGGCTTTGGGATGGTGTGGTTGGACGATGACGAAGCAACCCAACTTCACCGGAGAGGAGAGGGGCGGCGGCGGCTGGGGTCTGGGGATGGAGGCTGCGTCTGACCAGAGACTGGCCACGTCAACAGATCACCTGTTAGAATTAGAATCCCCCTTCGTTTGACAGGTTGACTTGTCCGAGAAGACACCCAATTAAAAGCATCTTTCTCATCCTTAAAGAGATATTATGGGGTGTCATAACGTACGAGATACCAATCTAATCTAATCATTGATTTAATGGGGGTAGGATCGTCTAATGAAAATGAGGTGCCCGGGCTAATGATCCGTTCCTCGCCGTTGCATCTAAGCTTCCCCGGCGCCGCCGTATCAAGCCTGTTCTCCCGCCGCGGCGCCATCGCATCGACCCCGGCGCGGCTGCCGCCGCAACGAGGCCGCCGCGGCCGCCGGCGCATCGAGGCCGCCGCGGGCGCCGCCGCATTCAGCCCGCCGCCCTCTCATCGAGGCCGCTGTGCCTGCCGCCATCTTGAGCCGGCTATTGGCTAGATGCTTATTGCTTAATGGAATATAACAGTAATTAATCGATCCAATAACCATAGTAAGCAAGAGTAACAACGAAGTTTTTTTCCACCAAAAATCAACACCAGTATATTTGTACCACGAAAGAAATAGGTGGGTGAGCTATTGAGCTTCGCTGAAATTAAAGGACGGGAAGTCAGCTGTGCAACTGGCAGCATCTTCTAGCCCAGTAGCCCATGAGCGCAGCTGGGGGGCATCACCGAGCTTCTGACCACCACCGCCGAGAGCTTCGCCGGACCCCTGATCTTTGCCTCTTGAGATTTCATTAAGATCCTAACTGCCGCTGGCAAGAGCATCACCCTGATATAAGCGCCACCGTCGAGAGCCTGGCTGGAGCTCCTAGCGCCGCCTTGGGCATCGCCGATCTCCTGACGGCGCCGTGCCGCCTGGGGCTTTGACGATGCAAAAACGAGAGGCGAGAGCATCAT

Coding Potentia
Explanation CPC Score
noncoding -1.13468
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0159400.1 2 12731695 A G
Osa02LNT0159400.1 2 12731801 C T
Osa02LNT0159400.1 2 12731863 T A
Osa02LNT0159400.1 2 12731868 A G
Osa02LNT0159400.1 2 12732384 A G
Osa02LNT0159400.1 2 12734199 T G
Osa02LNT0159400.1 2 12735441 A G
Osa02LNT0159400.1 2 12735929 A G
Osa02LNT0159400.1 2 12736029 A G
Osa02LNT0159400.1 2 12733551 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0159400.1 osa-miR5537 Translation 4.5 6.249 1 22
Osa02LNT0159400.1 osa-miR814a Cleavage 4.0 17.949 1 22
Osa02LNT0159400.1 osa-miR814b Cleavage 4.0 17.949 1 22
Osa02LNT0159400.1 osa-miR814c Cleavage 4.0 17.949 1 22
Osa02LNT0159400.1 osa-miR2098-3p Cleavage 4.0 19.153 1 20
Osa02LNT0159400.1 osa-miR2926 Cleavage 5.0 16.79 1 20
Osa02LNT0159400.1 osa-miR5499 Translation 5.0 13.409 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0159400.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0159400.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0159400.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0159400.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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