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

>Osa02LNT0187800.1

CAAGAGAGAGAGCCACAAAGGAGGCACAACGTATGCACAGTATAGATGTTAACCTGCAGTTTTGGCCACAAAAATACATTGCACAATACAACGAAATGTCTATCAGTTAAAAGCAAAAAATAGCCGCCCTAACGCTTTACAGACTCCCAAAAATACAGACTGCCTTTACGTTTGATCTTTCTTCAGTTCTTTTACGCTCTTTCTCTGCAGTCAAATGTAAGGGTGCGGCCGTTTCTAAGATCTCAAGAATGTTACAAGCACAGACGTGTATATCTGGATGTACAAGTTGCCAACGCCTAAAACATCTAGTCAACTCAAAGCCTCGATCCCTTCGTGAATTCGCTGCTTCTCCATGTTTTTTAGTTTCCAAGTTAATGAACTTTCTCATCAACAATTGGACAACTCGTGCCGTCGATCCAACAGTATATGGTAGTATAGCAATGGTTAACTGGTAGCAGCAGAGTTAGCAGAAGCAATGGCTGTTGCATTTTAGACCTTACTCACAGGGTTCAGCTGAAAAATCTGGCTCATCCGGCTTTCTTAGCTTAGGCAACTCTTTCATGTTCTGAGGTCCTTTCCTACTCCCACTCATGATCTTCATAGCGAGATTCTGCTTAGGTGGCGAGTCATCTTCACCATTTGAGTCATCTGATCTCATGGAGCAGAATGACTCCCTCATGCTCAGGTCCCTTGCCATCTTCCTCCTCTTGTATCGCCGCCAAGCAGCTTGGATGAAGCATGAGGCCCAAGTTCTCCAGTGGTGCGAGTAGTACCGGAAAGTGTGTTGCAATCTTTTGCTGTGCAGACGCCTGAATTGGTTTGCAACAAACTTGAGATCCTCAGCTTGGAGTGCGAATGCCTCAACTTCTATGAGTGCCTTCACTGTCCGAGTGGATGACGGCAAATTAACAGTAGGTTTGGGGACAAGAGCCCACCCAAGCAGTTCCTCGCCGCAGAAATCACCGGATTTCAGGGTAGTTGAATTGAAGAAGCCAGTGCGGCCACCATTTGTTGTAGAGCTTTCGAGTTTCCCACGAATGATGAAGAGCATCTCGGTCACTGGATCACCCTCACGGACAATGTATGTGCCCTGTGTGCACAACGATGATACAAGACGCTCACAGATGGCGTCCAAAAGTTGATTGTCCATCTGGGAGAAGAAAGGAACCCGGCGAACAAGACCCAAGCAAAGGTGACGTTTAATGTCACGACGAAGATCTGCAGGAAGAGCCTGTAATATTGATTCTTCATTCACTCCTCGAGTTGCGAGCCACTTGTACTGGATAAACCGTCTCACCCTTTCTCGTAGTTCATGTGGGAGTTGACGATGCCTCATCCACTCCTCTGTATCTCTTTGTTTTAATCTCCATTCCTCAACCCTCACAGTGATAGATTGCAAGTAGGTCTGTACATTTCCAATCAAATGTGCAAACAAGACGAGACCAAGTACTGCCAAGAATATACAGTATAGAGTCTCACCAATATAGGTACTCACAGTAATAGTCTGGCCATAGCAACTCAGATTCTGCAAACCCCACCAAAGGGAATAGAAATACTTCATCAAGAAACGTTGCCCTGGGGCTTGATTAAACAATGCAGGCTGAAACATGCCATAATCAAAACTGATTGAAGTGTTAGTTGCGTCACAGGTATTGAAGATAGCAGTTTTGCTTGCCCAGTTTTGATTTGGTATCACATCACAATCTAGAAATTTAATATCACAGCCAGTTTCATTCTTGCAATTGCTCTTCCAGCAGGCAGTTTGGCGATCGACAGATAGCAAATACCATAGAGCACCTAGTACATGACTGGCTATCATGTAAAGCAACATATTGTATGCAGCCCCTTGCCAAGCAGTCTTTGCGACAACTCCAGTAGTTTTGACAATTTCATAAGTCAAGGGGAATATGAGGTATAGTCTTGGAAAATACTGAGCAAGAACTATCAGCACCAGAATATTGTTGTTATGCTCATCAGTGGAATACTTAATAGCTGGTATCACAAACCAGATTAAGATCTGTGGTAAAGGCAATGCAGCCACTGCATCGACTACGAAGTCAGATCTCAAATATTGCCACGCAATTTCCTTTGGATCCGTGATAAGGTCTCCTCTTCCAAATACCCTCATGGTTGAGCTCGGATTAATATATGCCGTTCTAAACTTTATTATAATGTGAGTGAAATATAGTAAATCAGAGATTGATCGGAAGAATGTAACAGTGATGGCTAAATGCCTGTCTGTCCCAATACACGAATTTGGGGTGCCATAGGAGATTTTTGGCACGTAGAAGTACAGAGGGTCTATAAATAGAGCAACGAAGCACGAAAAAAGGAAAATGTGGTTCCATGTCAAGATGAAGTCACTTGATGGGTCCAAAATCCTTTTGTACCACAGCTCTTCTCCTGGCACAAAAATTTTGTTCTTTCCTGAGCTTGCCACACCAAGTTTACTAGCAGCGAACCCTGCCTGTTTCTGGTGAGTTGGTATAGTTGGTTTTGCCTTCTCATCATAGAACCTCACGGTTCTCTGCCTCTTGAGCGCCATCTCATCGTCCACCTTCCCCGCCCCAAACATGGCATCAGCTACAGCGAGTCAGCGAGCAAGAACTCGTCAACCACACCGCGCAGCAGCCTTGGCAGCTTCACCGGCCGAATCTGGCGGGGAGGCGGCCAAAGACCGATCTTCTGCGCAGCATCGGCACGAGGAGGGTGGTCAGCGCAGCGGTGGGGATCGTAGAGCCTGGAGGAAGCAGAAACTCCTCCCCGTGGATGCTCCCCACCTTGGGCTTAATTACTTTATTAGTCGCCGCTAAT

Coding Potentia
Explanation CPC Score
noncoding -1.14619
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0187800.1 2 33535146 C T
Osa02LNT0187800.1 2 33531190 A C
Osa02LNT0187800.1 2 33531690 A G
Osa02LNT0187800.1 2 33535182 C T
Osa02LNT0187800.1 2 33536012 A T
Osa02LNT0187800.1 2 33536156 G A
Osa02LNT0187800.1 2 33536251 C A
Osa02LNT0187800.1 2 33537080 T C
Osa02LNT0187800.1 2 33535625 C 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
Osa02LNT0187800.1 osa-miR812t Translation 5.0 19.914 1 24
Osa02LNT0187800.1 osa-miR812u Translation 5.0 19.914 1 24
Osa02LNT0187800.1 osa-miR156k Cleavage 4.5 19.987 1 21
Osa02LNT0187800.1 osa-miR438 Cleavage 5.0 9.516 1 21
Osa02LNT0187800.1 osa-miR810b.2 Translation 4.5 15.342 1 21
Osa02LNT0187800.1 osa-miR2100-5p Translation 5.0 22.083 1 22
Osa02LNT0187800.1 osa-miR2104 Cleavage 5.0 22.246 1 22
Osa02LNT0187800.1 osa-miR2871a-3p Translation 4.5 18.2 1 21
Osa02LNT0187800.1 osa-miR2871b Translation 4.5 18.2 1 21
Osa02LNT0187800.1 osa-miR812n-3p Translation 5.0 19.914 1 24
Osa02LNT0187800.1 osa-miR5519 Translation 4.0 12.184 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0187800.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0187800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0187800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0187800.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0187800.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0187800.1 2 nan Morphological trait Seed C747 C1445
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