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

>Osa04LNT0267300.1

GATCACAAACAAATGTACCCACACTTCTATCCAAATAAAGATAGCAGGCCAACTTAAGAGAACAGGCAATATTGTTTATTTTTGTATCAAGAAGAAAAAGGAGGGGGTGATTACAACAAATGTAGCTTTGACACCAAAGGTCCTACCTTACCATTCTCTCAAGAAGAGAACAAGAACAATATGCCTTGAAATTGGACAACCTCTGCAGAAGGAATAAATTCAGGGTTGCCTTAGCCCCTCGATTGTCCCCATGAGGCGCCACTGTTACTTGTAGCCAGAACCTTGAAAAGAACATGCAGTTACTCATAGTTCTTCCCAGATTTAAGGTAGACTGGTGTCTCCAGTGACTTGCTTGGGTGTCCTATGTAAATTTAACTGGTCAAGCATTTCCTCCCGGTCTTGTGGAACCCAGAAAAACTATAGGTAACTATTACAGTTCCATACCCATGCCTAAAGCCAGAAATCATGATTCAGAGTCATCTCTGTTCCATGTCAACTACGCACTCTGAAGTCTAAACTCATCCTTTTGGCCGCTCAGGGCTCATATGAACAACTCACGGCCTTCACCCTACCGTGACATTGCATTTGGATTCAGAACCATGGACAACAAAACCTTCTCCTGCCCCCTTGATGTCTGATTTAACAACACCGCTGTTTGGTAGACAAGGGCATTGCACCGGTTCACCCCTGATAGGCTCCCCCTCCCTTCATCCAGCCAACCCGCCAAAGGAGAGAACTCCGCAGCTGGCTCATGGCAAGAGATTAATCTGATGGTGGATTTCAACATGGAAGATGATGGAAACTTTGTGCTTCATCCAGTCGCTGCATGATCTACAAACCACTACATAGATTTCAACATGGCAGAGCTGACTCTACAAACTTTGTGTTTTTCCAGTGAATATTCAGGAATATACAAGTGGTCCTCAACACAAACGGCTAGACATACTTCACCAATTCGCCTTGACTAACACCACAGAATCAATGTGTGTGGAGATAAGATCCAGACTCAATATGGACTGGTACCATTGTGCTACACTTGACCCAGATGGCATATCCCAGCAAAATATCTCTGCCCAATGACGGCAGCCAGTACAACATGTAGCGGACCTGAATGTAGTTATCCCAACGAACATCCGTTACTTTGTCATGACTAGACAATCAAAGAGGCAAGCAGTGTATGCTCAACAGCTCCAAGGACCAATGCCAAAGGTTTGTAGCAGCAGTACTTTAGTGTAACCAACGGACTCGCTAAATGGGCCCTACGCATAATTTGATCCAGATGCCTGATGGAGCTGTTGAGAACTTGAGATCATAGCACCTCCTGACCCCACAAGCAACATCGGTAGTGGACATCTCGCCATAAATAATCAACAGGTTCAAAAGAGATAGAGCCCCAAATGTGTATCTATGTCATGTACTACAGCATGAATCTATAGCTCTCATGTACTGCTCTGCTTCAATAAAGAAGGCATTCAGTCGGTTGCAAACAAACCACTGGTTGCACTAATTACCGAATCACCAGCATCAGATACAATCTATGTTGAGCTATAATGGAGCCTGCGTTGCCAAGTACCTACAACTCAATGGGCTCAGATGCGGTTAGGCCGGACCCAGAACAGCTCGCGGATGACCGCCGCGACGATGACGACGTTGGGCACGATGGTGAGCACCGCCCCGGCGATGGAGTGCGGCGGCCGCGCCCTCATGGGGCCCCTCTGCGCCCGCTGCCGCCGCGCGTAACCCCGGAGCTCCGCCTCGCCCCACCGCTCCGGCGCCGGCTCGATGGCGGCGGAGGGCACGACCGGCGGCGGGAGCTGGAAGGGGCACCGGGACCGCCACGACGACGGCGGGAGGCATAGCCTGGCGGCGCGCGGGAGGAACACGGAGGCGAGCGCCCACCGGAGGAGGCCAGCGCCGTCGCCGGCGCCGGGGCAGAGGAACGGCGGGTAGGTGGAGCCCGGTGGCGGGCACGGCACGCGGGACGCGAGGAAGAGCTGCGAGTGGAGCGACGGGGAGTGGGAGGGGTGGGTCAGGATATGGGTCAGCGCCTCCACCCGCCGCGGCCAGGTGGGGCTAGTGCTGCTCTGGGGAGCTCGGCATCTAGCTCTCGGCTCCGCCATGGCGGATGCGAGAGGAGAGGTCGCCGGAGGCGGCGTGGCCAGCGCACGCGGCGGC

Coding Potentia
Explanation CPC Score
noncoding -1.15944
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0267300.1 4 23785663 A G
Osa04LNT0267300.1 4 23786637 A G
Osa04LNT0267300.1 4 23786796 T C
Osa04LNT0267300.1 4 23787673 G 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
Osa04LNT0267300.1 osa-miR166a-5p Cleavage 4.5 14.282 1 21
Osa04LNT0267300.1 osa-miR166d-5p Cleavage 5.0 14.282 1 21
Osa04LNT0267300.1 osa-miR166e-5p Cleavage 4.5 14.282 1 21
Osa04LNT0267300.1 osa-miR166k-5p Cleavage 5.0 14.282 1 21
Osa04LNT0267300.1 osa-miR5518 Translation 4.0 19.032 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0267300.1 4 d11 Morphological trait Dwarf nan nan
Osa04LNT0267300.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0267300.1 4 nan Morphological trait Culm/leaf RM3337 RM3785
Osa04LNT0267300.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0267300.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0267300.1 4 orl1 Morphological trait Culm/leaf S10628 C377
Osa04LNT0267300.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0267300.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0267300.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
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