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

>Osa04LNT0280300.1

GACCACAAACGTCACCATTCAAGATTCTACATTATATTTGTTTATACAGCAGGGGTTCAGAGTACAAGATTGGCCGGGTAGTATATCACCATTTGAGCAAAACAGACTGAGCAAATGCAACATAATTTTCGCTGTGTTAAGGCACTCAAAATGGAACATGGGGGATCAATTGTGTTATCTGCAATCTGGCAAGCGTTTTCCGCGGACGTGTTCAAGCGACGGCTTGGAGAGCTCTCTCGAAGTTATCTTCTGCTGATACGGCACGCTTTACTAGCACATGATCGGGGTGTGATAGTTTCAGCTGGCTGAGGTATCTTGATGACGGTTTGCCAAGGTGGAGATTACACACAATAAGATTAGCAAGAGTTTCAGGATCTTTTGCATCCTTGTTCAATGCTTCGAGTAAAAGAGTCTCAGCCTCATCAAAGCTCCCCATGTGCATACAGCAAACTGCCTTGCCATTTAGAACCATTCCTGTCATCGGGTATTTTTCAGCAAAGTCTTGGAATATGAGGTAAGCTTCACGGATCTTAGAGCCACCAACAGCAATGTCCAGCCATGCGTTTGCAAGTTGTGTCAGTGTATGGTCCTCATCAATCTGTTGCATGATCTTTAATTGCTTCTCGGCATAGTCTGAACGGTGCATCTTAATGAAGATCTGGACATTCAATGCATGCAGGTCCAGAGTTCCACCAGAGTGTGTGTGCTTGAGAGCTTCAGTGTAGTCTTGCTCATGCATAAATATAATTCCAGCAATCAATCGTAGAACAGGATTGCTTCCAACCGCCGAATCACTCAACCATTCCTTCAGACTGACAATCGCACTTGTCTCCGGAGAGGTACAGCGCGAGCAGCTTCACGGCCTGCAGCGACGTCGCCGCGGACGAGTCGATCTCGCTGATCACCAACTGGTAGGAGCCGAGCGCGACGTAGGAGCGGAAGACGATGGCGTCGCGCTCGGCGGCGGCGTCGGCGTCGAGGCCCGGGACGTCGCTGTTGTTGATGGCGGCCTGGTAGGCGCCGAGGTAGAAGAGGTTGCGCAGGTTGAAGAGGAGGTCCGGGGACGCCATGGGGTGGCTGCTCCGGTGCTCTGCCGCCGGCGACGACGAGGAGGAGGCGGCTCGTCGGCGACGAGGAGTAGGAGATCTCGCGAGCGGTGGCGCTGCTGCTGCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.06042
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0280300.1 4 31066745 G A
Osa04LNT0280300.1 4 31064628 T G
Osa04LNT0280300.1 4 31064592 A T
Osa04LNT0280300.1 4 31067042 A C
Osa04LNT0280300.1 4 31067077 A C
Osa04LNT0280300.1 4 31067844 T A
Osa04LNT0280300.1 4 31068157 A C
Osa04LNT0280300.1 4 31066518 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0280300.1 osa-miR5530 Translation 4.0 13.401 1 21
Osa04LNT0280300.1 osa-miR5792 Translation 3.5 14.069 1 24
Osa04LNT0280300.1 osa-miR1441 Translation 5.0 13.641 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0280300.1 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0280300.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0280300.1 4 nan Morphological trait Root RZ23 RM255
Osa04LNT0280300.1 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0280300.1 4 nan Morphological trait Panicle/flower RM303 RM255
Osa04LNT0280300.1 4 qPN-4b Resistance or Tolerance Drought tolerance RM317 RM255
Osa04LNT0280300.1 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0280300.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0280300.1 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