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

>Osa03LNT0193900.2

TTTCAATCTCAAAAATTCAAACGATTAATAATATGAAACAGAGAAGTAATTGTCGAACAGATATAGTATCACGGGGTTTTTAACCTCCCTCGCCATACAGCTGGCCTCTAGCCCCACAAGTCATTCATCTAAACATATTATGTTTTCTAAAGCTGAAAGCGTATTTCTTCTTGCCGCCTTGCTCTGTTTTACTCTGCTTCAACTCCTCTGGTTCAGTCAGTGGGTGCGCAGGTGTTACACTCTTCCCCCTCACTTCTCTCCTCTCACTTCTCCTCCTCTCTCCTCCTCCTGCTTGAGAGTCCCCAGCACCCACGCCCCTGGTTACGCTCATACCAGCATAACCACCATCAAAGCCATTGATGGGATGCAACATTTCAGCAGCACATGCAAAACAATAAATAGATTTCTTCCTCTTATTTGCCCTCATGCTTAGTCGCCGATCAGCATCTTCACCATATAGGCCACCTTGATAATTCTTTCTTAACAGTTTGCATGAAGATAAGCCCCACTCATCGGGCTCATTGTCACCCACGGCGTCTGTGTGAAACTCAGCAAATACTAGAACTTTTTCAGAGCCAGTGCCAGCATAGAAGTTCAGATGGGCATATTTCTTCAAGCTTGTTTCAGTTTGGTCCAGAAAGGTTTGCAGAAGAAGGCGTTCAGATAGCTTGAACTTGTTTTCCTCCGTTCTCTTCTTTTCTTTGTTAAGCGATGCAAGTGCAGTTGTTGCTAACTGGTGAAACTCCATGTCAACTAGTGCAGAGCTGTATGCCTCAAGGAAAGAATTGGCAACACTATCAAAATGGGAGGTGGAATTTGTATCTTGTGCTGGCGATGGACCTAACAAAGTGGTTCTTAGGGACGGTGAGAGCTCCCAAGCAAGAACATGGCTGCTGCTGCAAGGCTCAACACCATCTTCCTCTGAAACCTTAACCATCTGCAGGTCCACGGCAACTAGATGCTGCTTCTGGGAGAAGTAGACCACGTGTGGTTTGCTGGGGTGGAAGAAGGCAATCTTCCAATCACACAAGTCAGTCCAGATGTCATCAAATACAGGACTGGACAAATCGAAGTCCAAAGTCCAATGGCCAGCCTCAGAATCAGCCAATGTCCATAATCTGATCCTGGACTTAGAGTTAGAGGCGTGGCTTAGCACCACCAACCGCAGCTTCCCACGGCTGAGACCCACACGGCGATTGTCACTCAGACCCATGCGACAGCTCTGCTGCACATTGGGGTTGCGGCAACAGCTTGGGAGCGGCACGAAGTGAAGCTCTGGATTGTCAGAGAAGGGATCGCAAGCAACGAGGCCCTGCAGGAGATCTACCCACCAGAGCCTCCCCTGGTGAGAGAGAGCATAGTCACTACACCAACACCACAGGAGCTTATACTGAGGGGGTTGTTGTAGAATCTTGTGGATCCACTTGGCAGGGTCTGTGGAGAAGCAGCGCAGGATGACGTCGCTGCCACGGATCGAGAGCTCCGCGACCATGATGTAGATGTGGTCGGATCCTCCGGGAACCACGACGAGGCCAGTGGCGGCGCCTGTCTCGGTGGGGGTGGCGGGGACGGGAAAGGAAATCTTGTAGACTGCGTCCCAGAGAACGTAGGACTTGCTGTCGGCAAGAAACGGATCGGAGCTGGAAAGGAGAAGGATGCCGGAGGGGTCAGCGGCGAGGACGCTGCCTGAGGCGAGGCCGAGCGAAGGGGACACGAGGAGCTGCGAGATGCGCGGGGTTGCGACGAGCGAGAGGGAGATGCCGTCCTTAGGGAGGTCGATGGAGGTGAGCGGTAAGCGGTCCAATACAACCCACTCAGGCGGCGCGGCCGCCGGCGGCGACGCCATCGGGTTTCTTTCTGGGAAGAAAATTTGGGGGTTTTCGTAC

Coding Potentia
Explanation CPC Score
noncoding -1.01692
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0193900.2 3 663883 T G
Osa03LNT0193900.2 3 662592 T C
Osa03LNT0193900.2 3 664688 G A
Osa03LNT0193900.2 3 665512 A T
Osa03LNT0193900.2 3 665984 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0193900.2 osa-miR5537 Translation 5.0 10.914 1 22
Osa03LNT0193900.2 osa-miR5800 Translation 5.0 18.764 1 21
Osa03LNT0193900.2 osa-miR1858a Cleavage 4.0 16.866 1 21
Osa03LNT0193900.2 osa-miR1858a Translation 3.0 5.398 1 21
Osa03LNT0193900.2 osa-miR1858a Translation 5.0 16.136 1 21
Osa03LNT0193900.2 osa-miR1858b Cleavage 4.0 16.866 1 21
Osa03LNT0193900.2 osa-miR1858b Translation 3.0 5.398 1 21
Osa03LNT0193900.2 osa-miR1858b Translation 5.0 16.136 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0193900.2 3 nan Resistance or Tolerance Other soil stress tolerance R1468A R1468B
Osa03LNT0193900.2 3 qtl3.1 Resistance or Tolerance Drought tolerance RM7332 RM545
Osa03LNT0193900.2 3 qRDW3-1 Resistance or Tolerance Drought tolerance RG348 RG104
Osa03LNT0193900.2 3 qRTV3-1 Resistance or Tolerance Drought tolerance RG104 RG348
Osa03LNT0193900.2 3 nan Morphological trait Root RG104 RG348
Osa03LNT0193900.2 3 nan Morphological trait Root RG104 RG348
Osa03LNT0193900.2 3 dth3.1 Resistance or Tolerance Drought tolerance RG104 RZ329
Osa03LNT0193900.2 3 nan Resistance or Tolerance Drought tolerance RG104 RG348
Osa03LNT0193900.2 3 nan Resistance or Tolerance Drought tolerance RG104 RG348
Osa03LNT0193900.2 3 QPh3a Morphological trait Dwarf RG104 C515
Osa03LNT0193900.2 3 qST3-2 Physiological trait Eating quality nan nan
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