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

>Osa01LNT0010800.1

GATTCCAATGTCAGTAATGTCAATTTCTCCGGGGAAAAAATGTCACTTCCACTGTAGTACATTACGCAGGTACATAACCTTTGCTCAACTCTTGGCAATGCCTACCATCTACTGTCTATTTGTATTCTTCCTCACTCTAGTGTATTCATGTATACATCTTTCAACAGAATTGACTACCTTAGTACCTTCATCATGCTACCTTTAATTTTTCTGTTCTGAATTACTCCAGCACTTAAGACTGCAAACCAATCCGGAAAAAAGAAAATGATGGTCAGGTATGTGTATCCCTCTTCCTATGACGTTAGCCCTGTAACTTCCTTTGGTATCAGAAACAAAAATCCAACCGGTAGGAGAGTGCCAATCAGCTGTACACCTAAGCCGAGCGCCAGATTGTCGAATTGTGCTGATGAGATGCTTAAAGCTGACGCCAGAGCCGCTCCCAAGAATGAGCCTAAAGTCGAGCCAAAGTTGTTGATGGACATGAACAGAGCGAACAGTGTTCCCTCGATTCCAGGAGGGCAAAGCTGCCCAGAGAGGATGAGGAACGGCATCATCTTGAACTGGTTAATTGCATCAGCCAAAGCAGAACCCCACAAGACCATGTATTTGTCTGTAATTCCATAGTGAACATGTAACCGCAACACCAAAAGAATGTCCAGTACGCCAATTATGGCAAGACCAACATGTGCAAACATGAGAATATTCCTGAGTTTCTTGTGTTTAAAATAGCGGTTGTAGATATATGTGCCAAGCATTAGACTGAACCACCCAATTACACGTGCAGTCCCCAGAAAGGATGCCTCCAAATGTAGGACCTCTGTTTGATAGTAGAACATGACTGTTGAGATATTTGGAATTGCTACATTCGAAAAGAAAAACCACGCCATAGGTCGTAAAATAGTTGGTTGTTTGAATGCTGTGCATAAACTGAAGAATGCTGATTTCAGAGACAAGTATGGCCTTAAGTTAGTTGACTTGTTCTTGTCATGGTCCTCAGGTCGTTTGGACAATGATTTCCTTTTATTATTTCTCCTAGCTCCTTTTCGCCTTCTAGTATCTTCATATTTATATGATTCACTAGAGCTTTTTCCGGGAGAAGCATCAATAGTTTGATCCTCGACATGTTTAGGTGCAGCATTATCCATTCTACTCTCAAATCCTTTTGGAGATTCCTCAACAAATATGCAGGAAATTAGTTGAAACAATGGAAGCGCCGAGAAAATAATATATATAACATGTATAGGGAGATTGGACAGTGCATATCCCCCCAATAAGCTCCCAAAAATCCCCCCTACTGCCATTGATGACCAAGATAGTGACTGGAGATCACCAGCAAATTCTGGCCCAGCTGATCGAACTGCTTCTGCAATCATTGCATCTATAACAACATCTGCCATGGCAGATCCCAAGTTCTGTACTATCAGCAAAGCAGTAAGAAAATTGCTTGAGCTCCTCAAAGGTTCTGACATCCCAAGGATTAGCCACGGAAATAGAGATAGACAGCTAGAAATGATCAAATAGGGCGTACGCTTCCTCTGCTTGATGGGAATACAGTCTGACAAAATCCCATATACAGGCTTTATACTCCAAGGGAAATATGCAACTGAGACCAAAAACTGTGATGTTGATGGTGACAGTTTCATCATGTCCTTCATTTGGTACGAGACAGCTGTCCAGACAAAAGACCTGGATGAAGTAGATCAGGCAGACGAGCCACAGGAACGGCGCCCCGAACGCCGCCGCCATCCGCCCCGCCCACGGCGAGGAGGAGGACGAAGCCGCCGCCGCCGCCATGGCGGAAACGGGCGGGACGGGGTCCCCTCCCAGGAGAACGCCTCCTCCTCCTCCTCCTCTTCCTCAGCTGCTCGTCGCAGTGGATTCTAGGGTTCGGGTGGATCAGGAGGTGGAAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.844359
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0010800.1 1 7896108 G A
Osa01LNT0010800.1 1 7898176 C T
Osa01LNT0010800.1 1 7898796 A G
Osa01LNT0010800.1 1 7898775 C 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
Osa01LNT0010800.1 osa-miR5807 Cleavage 5.0 18.976 1 24
Osa01LNT0010800.1 osa-miR1853-5p Cleavage 5.0 13.972 1 24
Osa01LNT0010800.1 osa-miR1857-5p Cleavage 5.0 14.576 1 21
Osa01LNT0010800.1 osa-miR2866 Cleavage 4.0 12.7 1 20
Osa01LNT0010800.1 osa-miR2863b Translation 5.0 20.234 1 21
Osa01LNT0010800.1 osa-miR5524 Cleavage 4.5 11.287 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0010800.1 1 An9 Morphological trait Panicle/flower nan nan
Osa01LNT0010800.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0010800.1 1 nan Morphological trait Root RM7383 RM243
Osa01LNT0010800.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0010800.1 1 Rf Physiological trait Sterility nan nan
Osa01LNT0010800.1 1 ppp1.1 Morphological trait Panicle/flower RG140 RM243
Osa01LNT0010800.1 1 prg1.2 Physiological trait Source activity RG140 RM243
Osa01LNT0010800.1 1 spp1.2 Morphological trait Panicle/flower RG140 RM243
Osa01LNT0010800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0010800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0010800.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0010800.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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