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

>Osa02LNT0191000.1

CTATGCACACGGCAGTTCTGTGGCGGCTACTTTCTTGGACATCTTCAGGAAGAAGGCCAGATTGTGGTGAAACCTGTCATTGCCACTGCCTTCATCATCAACAACATCACCATCAGCTGCTCCATGGATGTTCTTCTCCTGGTTCGATGAGTTCTTGGTGCTGCTTGCAGCCTGTTCGTCGTCGGACCAGTAACCGTTCTCCATCACATCCTGCATTGCCAGATCGTCGTATTCCTCGTCGGACTTGGTGGAGTGTTCATCAACAGAGCCTGCTTCTATCTCGTGCATATCTCTTTCTTCATCAGTTAGGTCTTCGTCAGTTCCAGCATCAGGAGGATCATCAGCATCTTCTTCGCTACCAAAAACTGAATAATCATCCTCCATAAGCTGAAAAGTCAGGGGCAATCTGACACCTTTGGTGAACTGCAGCATGAGGAATAATATCTGCCGCCCGTTTCAATGCCATCAGCTCTCAAGTCATCTACACTTCCTGTATGGCTGGTGCCACCTGTGTCACTCATCCATGCACTGATCCCGAAAGATCCGAACTGGAGATTGACTGGCTCCGCCTTCCCAAATGTATCATACATGGGATTTTTTGTTGATTTGTCACTGCTTGTACCATCGAGACTTCCATTGCCATTGTTTTTATCCACATGCCAAGCTTTGGTGACACTACCGTCAGTATTAAGGATAGCCATCAAATTTCTTGAAGATCCCTGTCTTTGTATCAACTGAAACATTCCCTTGGAACCCAGTGAGTTAGCAGCACGCTGGTTCCTGTATTCCTCATTCACTACAGCTACAGTGTTTGTGTTGAGGTCATACAACTGCTCCCCAGCTTCTCGCCTGCGAAGACAGCTGAAAACCGTGGCGTGTATGGCCGCCACACTCTGGTCAACATTAGTATTGTTAATCTTGGGCACCAGATGCTTGTCTGCACGGTTACAAAGGTAGTCCTGGATTGCTCTGATGTTCCGGATGTATTTGATATATCTGTTCTTCGCTGGGTCTAGTGTCATGTACTTTGCACGTACAGCGAATCGCTCCATGTGTTTCTCCTCATTCGCAATGTATACCATAAATGGTATTATGGAAGGGTGTTTCTTCATTAGCCCCATCACAAAATTGAGGCTTAGATGAACTCCCTCAACAATTACAGATTGTTTCTGCTCCTCCCAGGACGTAATTAATCTGTCCAGGCTGTCTATTACCATCTCGCTTTGCGCCTTGAACCCTTCTATTGCCATTTGCTTGCTGCCGATCAACTCCGTTCTAGGAGGCAATTCGGAGGATCCATGATGAGCTTTATCATCTGAAGTGTCGTCTCTGCCTTCATTGGTATTAGGATGAGAAACAATGTCAAGCTTCTGTGCCTTCCGTTTTGCCTTTGCCTGAGCAACTGCAACAGGGTCTAAGCATTCGCCTGCATGATAGGTTGATGCATAGAGAAGAGGATTTTGCTTCTCATCCGTAAAGCCTCTCATCATATGGCGTATGGAATCAGTAGAAACTACTGTCGTGATACCCAATCTACTACCCAACAAAGATGATAGCGTAGATTTGCCGCATCCGCTAGTCCCACATAAGAGTACTGTCACTGATTCCTTTCTCTCCTTAATTCTGCAAGCAAGAAGAAAGTCAGCCTTCTGGTTTGGCCCCACATACTTGTATGAAGAGAGGGCATCACATACAACACTTAGGAACTTCTCCCTAGAAACAACGATGGTTGTTTGGGTCTTGTATAACTCGAAGGGTATGCTACTAAGAGTTGCTTCCAAAATTTTGGGCTTCAGCATCTCAACATCTTTTACAAGGGAAGGGGCATTTTCTTCATTATCTGCAGTATCTGATTTGGATGCATCCAAGAATTCACTCCTCATCACATTGAACACCCTCTTGCTAATCTTGAAGGCATGGCGAGCCTTGCATCCCATGAGTTGGAGGGTGCCCTGAAGCACGGGGCGCGTGTAGCGGAAGGCGCGGCGAGCGGCGGCGTCGGAGACGGCAATGTAGAGGAGCTTGGGCGGCGGCGGCGGCGGCGGCGCCTCCTCCGCCATGTCGTCCCCTACCTGCAAAATCAAGAATCAAGAAGAGGCCTCCCGCGGCGGCGGATCAAAGCAAGGCAAGAAGCGGCAGCGGCGGTGGCAAACCTCGTGCTCGTGGGGATGAGGAGGAGGAGGAGGAGAAGGGGGTTTTGAGGAGGCGCATTGCGGCGGCATGGGCATGGCGATGGCGGTGCGCGGGCGGCGGCAGGTGTCACGACGTCCACGCAGCGCACGCCCATGGCGTACACATGGCCTCACCCCTCTGCCGCTCTCGGCGTCCTCTTCTACCCTTCTTCTTCTTCTTCTTCTTCTCTCTCTTGTTTCTCTCTCTATCTGTGCTTGCTTTCTCTCTCTCTCTCTCTTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.990065
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0191000.1 2 35172974 A G
Osa02LNT0191000.1 2 35173098 T C
Osa02LNT0191000.1 2 35173179 G T
Osa02LNT0191000.1 2 35173227 C T
Osa02LNT0191000.1 2 35174334 G C
Osa02LNT0191000.1 2 35174349 A C
Osa02LNT0191000.1 2 35174573 A G
Osa02LNT0191000.1 2 35174695 A 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
Osa02LNT0191000.1 osa-miR5806 Translation 4.5 21.708 1 21
Osa02LNT0191000.1 osa-miR6252 Cleavage 5.0 22.879 1 23
Osa02LNT0191000.1 osa-miR1861o Translation 4.5 16.618 1 22
Osa02LNT0191000.1 osa-miR166c-5p Translation 4.5 16.371 1 20
Osa02LNT0191000.1 osa-miR167e-3p Cleavage 5.0 24.095 1 21
Osa02LNT0191000.1 osa-miR167i-3p Cleavage 5.0 24.095 1 21
Osa02LNT0191000.1 osa-miR437 Cleavage 4.5 19.346 1 21
Osa02LNT0191000.1 osa-miR1846d-3p Cleavage 4.5 16.447 1 20
Osa02LNT0191000.1 osa-miR1861a Translation 4.5 16.618 1 22
Osa02LNT0191000.1 osa-miR5148a Cleavage 5.0 18.156 1 24
Osa02LNT0191000.1 osa-miR5148b Cleavage 5.0 18.156 1 24
Osa02LNT0191000.1 osa-miR5148c Cleavage 5.0 18.156 1 24
Osa02LNT0191000.1 osa-miR5149 Translation 3.5 15.505 1 22
Osa02LNT0191000.1 osa-miR5149 Cleavage 5.0 16.764 1 22
Osa02LNT0191000.1 osa-miR5494 Cleavage 4.5 18.749 1 21
Osa02LNT0191000.1 osa-miR5523 Cleavage 5.0 15.762 1 22
Osa02LNT0191000.1 osa-miR5523 Translation 5.0 8.765 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0191000.1 2 nan Morphological trait Root RG256 RG151
Osa02LNT0191000.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0191000.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191000.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0191000.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191000.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0191000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0191000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0191000.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0191000.1 2 nan Morphological trait Panicle/flower RG256 RG151
Osa02LNT0191000.1 2 ss2 Physiological trait Source activity RM240 RM213
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