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

>Osa04LNT0287000.1

GGCCAATTCTGCTTTATAATAGGCACAGATAATCGCTGATGGTAAACAGATGAAAACTTTTGTCTCCTCAATCAGAAAGGTTGTGTAGATGGTTAGCCTTATCAGTCCCGATCAAACGATTGTACATGCACAATCACTTGCTCGATGCTTTCAAACTGGCGTCTTCCCTTCAGGATTGCCTTTGCACAATTAAGGGCACGTCGCTCACACGAAGCTCTCTTGCTGGCATCCTCAATCGACTCAAAATCCTCAACATGAGCAATTCCAACAATTCTCCTGATCATTTTTGCTGAACCAAATCCAAGACTGTCATGAAATAGGCTTGTCATGTACTTCTTCTGTACAAGGCTCAAAAGCTCTGAGCTGTTGTATATAGGGGGCAGGTATGCTTCCCCATTCCCATCTTTGTGTTTATTCCATAATTCGACAAACTTCTTGTGGAAAAAATTCCATGAATCTTCAATTGTCTTCAAGATCCATTTCTTGTAAGCCTTACGATCATTTGCTTGATCAGCATGTCCATCTTGTGAAAAATATGCCAAAATCAAGTTCCCCAGGAAGGCCCCAATATCGTAACCCATTGGGCCATAGAAAGCAAATTCTGGATCAATCACTTGAGTAGAATCTGGTGTCACCATGATGGAACTAGTGTGGAGATCTCCATGAAGAAAAGCTTGTGCTCTCTCAATAAACATTGATTTTAATTCAGCAATCTCCAACTTAAGCTCAGCATCCTCTCGAACCGCTGCAGCATCATTATCAAGGAAGGGTGATGTGCAGCGATTGTATTTGGCGACCCTGTATGGATCTGAGAATACAACTTGTTCTGTGAGCCTGCTCATCTCCACATTATCGCAATACTGAGCAACTCCTTTCTTGTGATCAGTGGTGGAGTTGTAGAGAAGTGAAGTGAAGAAGAGCGTCTTGGCCATGTAATCCGCCATGTGCTCGGCGAGCAGCGGGTACTCGACGCCGGCGACGAGGCCCTTGCGGAGGATGATGTGCGGCGGCTCGATGTAGCGCATCCCGATGAGCGACATGGCACGGTCGAAGTGGTAGACCTCGGGGACATGGTCCGGGCAGAGGGCGCGGTGCTTCTGCAGCGCGGAGGCCTCGAAATAGGCGCGCTCCCTCGACATCGGCCATGAATCCCCCACTAAGCGGATGTACGGCAGCGCCTGCTTGATGACGAGGGAGCCGGCGTCGGAGAGGACGATGTAGACGAAGTTGAGGTTGCCGTCGCCGACCTCCTTGATGGTGAGGGCGTCGAGGCGGCCGCCGAGGCGCGCGGCGAGGGCGGGCGTGGCCTTGATGTAGGCCACCAGGGACGCCTCGTCGAGCGGGCGGAAGCCCTGCTGCTGCTGCTCCGCCGCCGCCGCGGCCATGGCCGGTGCGTGTGTGGGCGTCGAGTTGACTTGACCGATGCGAGCGCCGGCGGCGAAGCGGGGAATCGGGTGAGCGTGTGTGTTGGAAGTGGCTGCTGCTCGGGTGGGATTTGTAACAGCTGCCGTTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.793959
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0287000.1 4 34163630 G A
Osa04LNT0287000.1 4 34163709 A 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
Osa04LNT0287000.1 osa-miR5532 Translation 4.0 9.862 1 22
Osa04LNT0287000.1 osa-miR160a-5p Cleavage 5.0 18.982 1 21
Osa04LNT0287000.1 osa-miR160b-5p Cleavage 5.0 18.982 1 21
Osa04LNT0287000.1 osa-miR160c-5p Cleavage 5.0 18.982 1 21
Osa04LNT0287000.1 osa-miR160d-5p Cleavage 5.0 18.982 1 21
Osa04LNT0287000.1 osa-miR160e-5p Cleavage 5.0 18.982 1 21
Osa04LNT0287000.1 osa-miR1425-3p Translation 5.0 9.927 1 21
Osa04LNT0287000.1 osa-miR1870-5p Cleavage 3.5 12.256 1 24
Osa04LNT0287000.1 osa-miR2055 Cleavage 4.5 15.169 1 21
Osa04LNT0287000.1 osa-miR2092-5p Cleavage 4.5 12.438 1 21
Osa04LNT0287000.1 osa-miR5488 Translation 3.5 13.867 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0287000.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0287000.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287000.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0287000.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0287000.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0287000.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0287000.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287000.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0287000.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0287000.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287000.1 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0287000.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
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