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

>Osa04LNT0264000.2

GTCAACGTTACACGATTAAGAAAAAACTGACAAGGTAGTCCAAGACATATACTGCAGTTCATTTGTTTTTACCTACTATTGCTGAATTCAGTAGTACACATACATGATAGTAGAATTCCCAAATAGAACTGGAAATAGAAAACTGGATTGTACAACTGAAACAGTCGTATATACAACCTTTTCAAGTTTGTCAGAAGACAGGTTTTCTGCTATTAGGCATTATAACCACAAAGACAGCATCAGATATATCCAGAAACCGAAACTGCGACAGAACAATCGAACTTTATCCCCTTTCAGTAGAATTTACACACACACACACACACAAAAATCTAGAAATCCCCTGTCCCAATCCTCACATCTTCACCTAGACATGCATTTGAATAGCCGGGCACATCATACGGATCGAGGGTGGGGGGGAGCACACCACTACATTCCGCTAAATGCATGCTTAAAGACTTTTTGGCAGAGCCTAAAGAACAAAGAGCTTCGCCTTCGGTGGGAGTGCCTCGCGGATATGAAGTTCGATAGTCTGACGAGCAATACTGCAGAGATAGTCGTTCTTAATGTCACTTTCCAACATTCTTTCAGTTGTATCCACAGTTATAACGTCTAGTGCAGTTGCATTTTCCACAACATGTAAAAGAAACTCAAGTTGTCCTCTAGCCCCTTTGAATCCTGTAACACAAAGGTTCTTCAGATATTTGTATTCATCGTGCCCAAGTTCATGTCTAAGGGGGCCTTCTTGTGCAAACCATAGGCTATGACCGCTAGCAAAATGCACTTCCACCTTTTCAACGAAGGGTGCAGCCCTCATGACATAAGCTAAGTACAGAATTTTGTCGGAACCATGAGATAATATGTGCGCAAACAATTGTATGTGTTTGAGACAGGAAAACTTCAGTGAGTTATCTAACGACCATAGATTCTTCAAGTTAAGAAATCCAGTACATAATTCAATATGAACACAAAATGGGGAAGAGAAGATACTGCCGGGAGGTCTTCAAATTGAAGATTTGACTTCCCTTTCTCACTTATTTCTTTACCATGGGTAGGTTTCGGTGTTGTCCTTTTGCACATTAGATACTTCCCCATTTTAAGTACAAAATTAATAAAATGCAGCTCCTGCGGAAGCTCACTGGACAGCATCCTGGAAACGCGAGATGCTGGAAGGCTGTTCTCCTTACCCCCAATAAACTCCAATGAACTTCCTCCAGTGAACCCCACCCCCTCTTCTTCCGAATGCGAGAGGAACTCGCGTCAGGCTAGGCTAGGCTAGGCTTGGTTTGGTTGAGGCCGGGACGGCAACCAGGCAACCAGCCGGTGGAGTTCCTGTCGAACCCGTTCTTCACCGAGCCTGTGCATCGAATTCGCAAGCTCGGAGGTTTCCCGTCCAACGCCGGCGTCGGTCATGCCCCGGCGAGAGCACTCGTCCCTTCGTCGGCCATGCCCGCGAGCCTCGTCGGGCCACGCGGGGAGGAGACGGTCGGAGCGGCGTTGGGGAGGGAGACCATCGAGGCCCCCCCAATACGCGAAGCACCGATCCCCTCCTGAGTTCCCTCCGCTGACGCCGACGCCGACGCGAGATTCAGCAGGATCCGACGAGCCGCCGAGGGAAGCAGCGGCCAGATCTGGACGAGGCGGAGCCCTCCGACCGGTCGACGGCTGGCGGTCGGTTCCTGTGCCGGAGAAGGTAGGAGAGGCGGAGGTCGGGCGGGCTCCAGCGGAGGTTGGCTGCGTTTGTTATCGAGGAAGAGGAAGAAGAAGC

Coding Potentia
Explanation CPC Score
noncoding -1.14767
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0264000.2 4 22267661 A G
Osa04LNT0264000.2 4 22268011 A G
Osa04LNT0264000.2 4 22268605 T C
Osa04LNT0264000.2 4 22270461 A G
Osa04LNT0264000.2 4 22270564 A G
Osa04LNT0264000.2 4 22270839 A G
Osa04LNT0264000.2 4 22268832 A 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
Osa04LNT0264000.2 osa-miR812q Cleavage 3.0 10.427 1 24
Osa04LNT0264000.2 osa-miR812q Translation 3.5 15.032 1 24
Osa04LNT0264000.2 osa-miR168a-5p Translation 5.0 18.348 1 21
Osa04LNT0264000.2 osa-miR168b Translation 3.5 18.348 1 21
Osa04LNT0264000.2 osa-miR435 Cleavage 5.0 22.69 1 20
Osa04LNT0264000.2 osa-miR2055 Cleavage 5.0 22.278 1 21
Osa04LNT0264000.2 osa-miR2873a Cleavage 4.5 9.906 1 24
Osa04LNT0264000.2 osa-miR2873a Translation 5.0 19.524 1 24
Osa04LNT0264000.2 osa-miR5080 Translation 3.5 17.017 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0264000.2 4 qGW3-2 Morphological trait Seed RG393 RZ403
Osa04LNT0264000.2 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0264000.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0264000.2 4 nan Morphological trait Culm/leaf RM3337 RM3785
Osa04LNT0264000.2 4 orl1 Morphological trait Culm/leaf S10628 C377
Osa04LNT0264000.2 4 gpp4 Morphological trait Seed RZ569 RZ565
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