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

>Osa04LNT0286000.1

GCTGATACAACAAAGTAAATATATTGGCACCACTGCCTGCTGATGGGGCTGAAAGGATTCTTTGCCTTGCATAAGAATAACATGACCACAGATTGTGCACATGAACGCATGTGCTGACTATCCATGACTTCACACAAACCTTTCAAGATTAGACCCAGCATGATGTAGCTTGGATTGGGATGCTGCAAGTTGCACACATCAAGCTCAAAACTGTCCTGTTCAGGTAAACTAGCAGTCTAGTGTAAAATGGTCCTATAGATGATACGGAAAAATATTATATTTATTCGACTCCAAAGCAATGGTAAGAGTTAGCAAATGTTCGCTGATTGGCTATACTGTATAACTCCAGCACTTGATTAAGTTCTACAAGACCATTATCAGCTGCAACAAAGTAGCCAAAAAAGTTGACTTGTTATTTTGTCATCTATGCATGCACAACTTGGGAGAAGACAAGAACCACAAGCTCCCTAGCCCTACCAGTTTGAGTATTCAAAGTTGCTATTACCATGCTACTGTTGTAAGGGTTCTGTTCTTGTGAGTTAAGCCACTAAAATAAATATAAAATAACAGTTTTCTTTCAAAAGAGATTATAAGAGAAACAGCATACTCAAACAACGCTCCAACGCTGACAATGGTCCAGTAATCCAGTAATACCACAGAACATCAGCAGTCCTCTTTACCATCACAGGTAAAAATGGCATTGTGTTCTAAAGTAATACGAGTATGGAATAAATGTACAAGAACAGGCTTTTCATGGTATAATTTATGCTGTAAACCAACCAGCAATAAAGGGTTCCCTTCTTGGAAATATTGTAAGAGTATCATTGTTAAGTGTTGATTGTGGCCAAAAGAATGCTCCGAGAAACAAATAAAATTTGGTGGTTAGTTCTCACTTCTCAGTTGCCCCTAAGCTTTATGTAGACTACGGTCTCTCATTGACAGCAGTAATTTATCAAACAAGCAATGATGAAAAAACAGTCATTTTTTGTGGCTAGTTTCCAGAGTACAACCATTTGATAAAACAAATATAAGAACAATGTAATCAATTCCAATGCCCCCCAAATCCCATGAATTGGTACTCAAACTAAATGAGAAGCACTGTTTTATGGACAAGTAGACACAATTAAATTAAAAAATGGTTGCGTAAGACAGATTGATACAGAAAGCTCTCCAAGAATATGGTAACTGCCAGCTGGTCACAAAAAAGGATACTAATGCTTGGCAAGTTGGCATGGCATCAGCTATGAAATAATTAAAGTAACTTTTATTTCCAAATTTTCTCTTTGAAATCGTAGTAGTAATGTATCAAAAGTCAAAACAGCGGAACAGTACATAACTACGATCCAACGTTACATTTCATAATGAAACAAAGAACATATTTCTAATTTAATCAAGGAGCAGGCGAGTTTGTGTAAAAAGTGTGGCTAGGATGAGAACTAAAAGAAAATAGATTACATTTTAAGTACTAAGTAGAAGAGCTGCCGGTTGAAGTTGCAATTAGTCTGTACGGAGCAGGAACTTTGGAAGGTAATAATAGATTAACATAATTTAAATAATCCAAAAAGACAAACCCAAGCACATGGCACAGCATTATCCTGCTGCTGCAGCCCATAAGGCAAAAGTAGACTAATAAATAAAGGACAGCCATTGTGATTACTACAGGAATTCCCAGTATTGCAGACTGAAATAAACAATTTTCATAACCATAAGAAACTGTGGAATGGCTTATTGCAAGTATGCAATCCAATCATAAGACTCCTAGTAACTACATACAACGGATCCTCGTTGTAACCATCCGAATCCAACTTCTCTTTGCACAATCCTGCTGCATACTTTGGTCATTCATGCTTGCATCAAAGTCTGTTTGGTGGCCAGTTGCTAAATTTTTAAAGAGAGGGGAGTTAATTGCTGAAACTACAAGCATAATAGCGCTGTAATAGCCTAACACCACCATAACAGCAATGATTATGACCGATGGGCAAAACCATTTACATCAAGTTATCACTTCTATGATGGGCTACCGAGATAGAATTCAATCATTCAGGAATAATTCCCAGACAACCCGACCCATCGTCCTGAGATCCAAACAACACCACACGAGTTCAAATGCCCCACGG

Coding Potentia
Explanation CPC Score
noncoding -1.38593
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
Osa04LNT0286000.1 osa-miR5535 Cleavage 4.0 16.133 1 22
Osa04LNT0286000.1 osa-miR5541 Cleavage 4.5 13.758 1 21
Osa04LNT0286000.1 osa-miR5810 Translation 4.5 17.924 1 24
Osa04LNT0286000.1 osa-miR5818 Translation 3.5 16.998 1 21
Osa04LNT0286000.1 osa-miR7694-3p Cleavage 5.0 17.955 1 22
Osa04LNT0286000.1 osa-miR7694-3p Cleavage 5.0 16.998 1 22
Osa04LNT0286000.1 osa-miR167h-3p Cleavage 4.5 17.055 1 21
Osa04LNT0286000.1 osa-miR2118l Translation 5.0 14.326 1 22
Osa04LNT0286000.1 osa-miR2928 Cleavage 5.0 16.484 1 20
Osa04LNT0286000.1 osa-miR1862f Translation 4.5 11.811 1 20
Osa04LNT0286000.1 osa-miR1862g Translation 4.5 11.811 1 20
Osa04LNT0286000.1 osa-miR5339 Cleavage 5.0 20.417 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0286000.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0286000.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0286000.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286000.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0286000.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0286000.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0286000.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286000.1 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0286000.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0286000.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0286000.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286000.1 4 tgwt4 Morphological trait Seed RG143 RG214
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