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

>Osa04LNT0275000.1

GAGAATCTTGATGTCTTGGCAATTTTAAAATGAAAGTTCTTGAACTGACAACTAAGAATGATACCATCCATGATCTTAACCCATTCGACAAGAATTTAAAAGGCTAGAACATATCCTGTACACAGCTAACAGACCACCAAATGTGAAGTCGACGAATTTTTGGCATCACTTAATGCGAGCCACAGTCACCACAATGAAGACGAACACTGCGAGCATGAAGGACATTCTCACTGTATCGTCATACAAATCATAGTCCTCACTCTGAGCTTGAAAGAGCATGTTCACAAGCTTAAGTATGCTCTCAAGGAATTCCTTGATCTTTGCTTGGGTGGTTTCCATGACCCACTTCATCACTCCAGGAGAAGCAGAAGAACTTCCATTGGGATCAGCCTCCTTAGCATCCTGAAAGGACTTCCTGAATTCTTGCACCACCTCATTTTTCATCACGGCATCCCATACAGACTTATCAGTTGACAAGGCCATAACCATTTTCTGGACAGAAGAATCTACTTGCAATAGGTGGAATGCATCCAGCACATTCCGATGTTCCCTTGTCAAAAGAGCAGTTGAGTTAAGGACAAGCATAGCAGGTTCAATACATTCCTCTGATGCAGTGTCTGGTGTAGAGTGTTCTAAGCTGGCTAATTGGTCAATCTTAACATCAGATGGAGTAGAATCCTCAATCTTAATATCAGATGGTGTAGAACCTTCAGAAAAATAATTAACAAACATTCCAGATGGAGGAAGTCCTGAGATGGGGGACAATGCAAGTGCTTGGGCAGGTGCATCAGAATCCAATCCAGGATGGTTTTCAAATACCCTGCATGCAACAGAAAACAGTGTGTGTTTTTTTATATAAAATATGTAAAACCAGATTGCATAAAATTAATCAACTGAAGAGCTGATAAGGTCTATCAATAACAGAGGGGATAACAAAGCAATGACGAGCATGTGTATGCAGTTGGAGAAGTACTACAAAAATTGCTTCTTTTAGCAGGATAAGTTGAAAATTGGAGATCCAACCGCATTGTACGGCATTCCACATCTAGACGGTGCATACACAACGATTTCAGGAACATACAAACATAGCTTGACCGTGGCTATAGGCATAATAACTTCCACGCAACAAATTTGTAATTAAAGGACGATTATCACCGATAACAAAACATGGAAAACCTCCCCCCCCCCCTTTTTATATTATTATAGAAGAAAATCAATTAGCAAGTAATTAAACAAGGCAGTTCCGATCTTTTCTAGATAATCAAAGATCAAAACTTGTAAACCTAAGAGCATCAAGTAGAATCTTACTCTTGGATGCTAGCAACGGCGGCGCGGACTTCCTGGTCGGTGGGCGGGGCCCCGAACGCCTCCGCGTGCTCATCCGCCGCCTCCTGGACAGCGTCGAACGCCCCAGAATCCGCCCCGACGGCGTCATCGCCCTGGGCGACGACCACCTCCCAGTCCTCATCGCCATCAAGGCGGAGCGCGCGGGACTCCCAGCACCCGACGGAGGCGATGGAGCAGGCCGGGGGAGGCGAGGCGGCGCGCAGGGCACGGGCCCCGGCTCGCGTGGCAGGGCGGCTCCCGCTGGAGATGGAGACGGCGGGAGACAGGGCGGCGCCACCGCGGAGCGAGGAGGAGCCGGCGAGGCGGACGAGGTGCTTGCCGCCGGCCGGGTTGCTCATGGCGGCGGCGCCCTGGTGGAGCCTCGCGGACGTCTCGCCCCCTCTCCAAGAGCTCTCCCTCCTCCTGTACACCACGTGGACAACCATGGCAGGGGCCTCGCCGTCGCCGGCTCGCAGCTGATGCTCCTCTGCCTCCCCCGCCGCGGTTTGTTCCTCTTCGCCTTCCGGCGAGGCGGCGTACGAAGTGGGAGAACCGGCAGATTTGTTTGGGTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.483907
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0275000.1 4 27571959 C T
Osa04LNT0275000.1 4 27572354 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0275000.1 osa-miR166g-5p Cleavage 5.0 17.265 1 21
Osa04LNT0275000.1 osa-miR417 Cleavage 3.5 16.871 1 21
Osa04LNT0275000.1 osa-miR2095-3p Cleavage 4.5 16.796 1 20
Osa04LNT0275000.1 osa-miR2099-5p Cleavage 3.5 15.271 1 22
Osa04LNT0275000.1 osa-miR2919 Cleavage 4.5 9.416 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0275000.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0275000.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0275000.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0275000.1 4 qCTS4-3 Resistance or Tolerance Cold tolerance RM241 RM317
Osa04LNT0275000.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
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