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

>Osa05LNT0310200.2

GCATACTACCAGAGTGGCCACATAAGTACATAACCAAAACACACCACTTTCCCCAAAAGACAAGGTAGACCCGAGTGACAGCCTGATAGGAAAGGTGGCATCAGGCCATTCACAGATTGAGCTAGGATTCTAGAAAGTCTTCCACCAATCCACCTCCATCTTCATGCCAAATCATCACCTTCCAGCCCTTCAAGAATGGCAAGCTCGAACTCAGGTTCGTCGAGTGAGAAGTCAGCAAACTCAAGTAAATCAGCAGGGACTAAGCTTGCAAGAATATCGGCGTTACCCCCAATGTCCCAAAACATTGACTCTGGATCACTATAGTAAAACTGTGGTTCTTGTCCAAAGCCGCAAACTGGTGTGGACAAACACCAAATCATCAACCCATTTAGGACGGCTCTCAATCTTCATGGCTGCGCGAATCAATTTATATGTGGTCCAGTTTCTCTCACAGCAGGATGCCGAGGCAGGATGGCCAAGAATCGTGAGGGCTAGCTCCTGAGGAAGCAAACTCCGTGCTCAAAAGAGAAAACTTTGCATACTCTGCTTTAATCGCCGTCAAGTCATCTGCAGCAGGAAATAATTTCTTCAAGCAGTCATTTGCCATTTCATTAATCTCAGCATCACTATGTGGGGGTTGACGATTAGCGCCTTCATCAATCCAACTATCGGCGTAACACCTACAGAACAGACCAAAAGATAGTGATATTACATGGCTTAAAAAAGAAATCATTTAGTAACTTAAACCAGGACTCATCTTGGATTTAGTGCATGTGCTAAACAGTGGAGTGGAGTTCTGGTCTTGCCCCACCAATCTACTAAATGCCATTTACAGCAGAGTAAAAAGTTGATTCTTCATCAGCCCCCTTGCCTTCATGTTTATAAATAATAGCCTTTACCTTCTCTGTCATATCATTCCACATTCCATAGATCAAATGAATGCATTGCTTTTCAGTGTCCGTGATGCGTATCATTGAATATATCGGTTCTGTGAAAGCAAGAATGTAATCAACTTGATCCCACCACAATTCATCAGTAAGTTTTTTTCATCACAAGCTTTGCTTTCCCCTCGTCATCTTTACTGTAAACGGACCACTTGTCACTGATGACAATCCCTATAAGAGATTGCTTAGTCAAACCGAAACCTCTTTAGCATGACAATATCTGAAGCAAATCTTGTGTGAGCAATGCCAAGTATCTTCAGCTTACTGAACTCGCTGATCATGGATAGTACCATAGAATGATTACTTATAAAATCATTTATCATTTTTGCATCCCCTATAACTTCTGAAATCCAGTGGCAGTCTTTGAAGACAACATTTTCGGCATTCTTAGCAGCACAAATATTCTCCAAGGCAAGACTTAAAGAATGAGCAACACTTGGCGTCCATTGGATGTGACTGTACTTCTGTTCAATCAGCACCCCAGCAGCTCTGCAAAAAGGATCATTGTCTGTGATCACTTGGACAACATTTTCTGATCCAACGTCTTCAATTGCAGCAATGAGCTTCTCTGCAATGTAGTCATCCATCATCCACATCCACCCATCTTCATTGTTAATTGCTTGCAAAAAAACTGGCCCAGCTTCATTGACAGCTATGATATTGATGATAGGTCGCCTTTTAAAATCTGACCACCCATCAGAAACAATCGTCACACCTGCTTTCCTCCACGTGTTTTTTATGGTCTGCAGCATGTTTTCAATGTCAGCCCTTTCTTTCTGCAAGAGAGTTGTCTTCAGCTGGTCGACCCCAGGAGGAACATATCCAGGAATCTGGAACAACGCGACCATAGCGAATGAACCCCGATAATATGGGTTCCTTGTAATAGTGGGGGACAAACCTATGGAAAAGAACATTTGTGTAACTAGGGAAGGCTGGTCATCTTGATGCTCATCCTCTTCAGCCGTGAAACCAGGCATGGAGGTGGCACGAGAGAATGCGCTCTTAAAGAATGGGTCCGTCGCGGCCTTTAAGGATAATCCTGAAGAATAGAACATTCTAGCAACTTCAGCATCCAATCGAGTTCGAAGTTTCATATGAAGATCCTCATCTGCAGCTTTGCTCTTTCTTTTATTTGACTGAAACATACCCTTGCTTGTAGGGGGCAAGCCATCTGAATAATCGACAGATCGTTCCACACCTTCCGCATGTTCCCACAAAGGCTCGCCACTTTGTCTAGAAGAACTATCATCATACTCCATATCACAGTCTTTGGAACGTGCAACACTAGGTTCCCCCATTGAAGCTCCAAGTTCCTCTCTGTTGCCCGCGGCGAGCTGGCTCTGGCACCGCGGCGGCGGCGGCGGTGGCTGGGCCTAAACCCTCGTCGCGAGACGCGGGAAACCCTCTCCACCTTTTCACCTCAGCCCGC

Coding Potentia
Explanation CPC Score
noncoding -1.11186
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0310200.2 5 20270055 A G
Osa05LNT0310200.2 5 20268945 A C
Osa05LNT0310200.2 5 20269035 A G
Osa05LNT0310200.2 5 20270820 G A
Osa05LNT0310200.2 5 20268631 T 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
Osa05LNT0310200.2 osa-miR812p Cleavage 5.0 14.041 1 24
Osa05LNT0310200.2 osa-miR5512b Translation 4.0 11.44 1 21
Osa05LNT0310200.2 osa-miR167a-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167b Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167c-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR156l-5p Cleavage 4.5 23.031 1 21
Osa05LNT0310200.2 osa-miR167d-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167e-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167f Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167g Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167h-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167i-5p Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR167j Translation 4.5 15.819 1 21
Osa05LNT0310200.2 osa-miR529b Cleavage 4.0 11.925 1 21
Osa05LNT0310200.2 osa-miR1853-3p Cleavage 4.0 15.859 1 22
Osa05LNT0310200.2 osa-miR1882e-3p Translation 4.5 10.025 1 24
Osa05LNT0310200.2 osa-miR5502 Translation 4.5 18.285 1 22
Osa05LNT0310200.2 osa-miR5512a Translation 4.0 11.44 1 21
Osa05LNT0310200.2 osa-miR159f Translation 5.0 18.813 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0310200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0310200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0310200.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0310200.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0310200.2 5 nan Morphological trait Seed RG13 RG573
Osa05LNT0310200.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
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