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

>Osa04LNT0272500.1

GGTATTGTCACTGCCTGACGTACGTCAAGTGAAAATGCATGTTTTCCACAATCCAATGCACGATTGGCCACAAGTGAAAATAACAAAAAACACATTCGTGCTTTTCAAAAGAAAAAAAACACACTAGATGCTTTTTATCATAGACAATTCCTAATATAGTCGTCTATGATATTTTTTAGATATATGTAACGGTTTTTAAATAACCGTGTACTGTCTGTCCTCCTGTTAGCCTTTTTCTATGGTAGTGCCCTCCATCTGAATGGATGTTCATCACTCACCAGATTTGTATACTTGATCAGTATGGAAAAAGGATAAGAGTCAGCATGCATGTATCACCACGCTTGTGCCTGTGCTGTGAAAAAAAAAAGTGATTAGTCGTAAAGTTGATTAGGATTCACTCCAGCTTCTGGTACTTCTGCTCCTTCCTCTGTGCCATGGTCAGTTTGAGCACTGGGAAGCACTGGCAGTGCCTCCTGAACCGGTCCAGGCCTTTCACTCTGATCCTCAGCCGCAGCCGCTTGATCTTGTCGATGACAGCTTTGAAACCCTTTTGGAGCTTTTTGGCTCTCGCGAATTTGATTGATCTTCTCTTGCTTCTCTTCCTCACTTGCAGCTTCTTGCTGCTCTCATCGTTTCCTCTGAACTTCGCGTCATCGATCACCTCTGTCATGATCTCCAGACGCTTTCTCATCCTGCTCTGGATGTAGCTTCGGGTGCACTTGATATGGTATTTCACGTAGGACTGGAAATTGAGCAGGATCCACGCCGTCCTAGCCGCCCTCCTCCCCTTCACGTGCCGCGCCAGGATGTCGAAGGACACGAAGCCACCGTTGGTGGTGAGGTGGTGCACGTACTCCCCGCGCAGCTCGGGTGGCGGGATCGGCGACCAGCTGCACCGCGGCGCCCTGGAGAAGGACGACGTGCTCCCGAGGTCCTGTAGCTCCTGGAAGAACGACGACGCGATGGCCAGGTCCGTGTCGTCCCTGAAACGCATGGGGAATATGGCGCTTATCTTCACCGGCGTTTTGCTGACGAAGAAAGGGTCCCTTTGGTTGTACACGAGCTTCATCGTGCCGGACGAGCCGAGGCTCGCCAGCATGTCCTTGAGCTGCGAGCTAAGGATGACGGATTGCAGCAACGATATCTGGTTGATCGCCTTGGTGCGATCTTTCGGTCGAGTAAGGCCAGAGAAGTTCAGTCTCAGTGTCAAAGTGTATCCTTCTTTTGCAGGCTCGATGATCTCTGCAAACTTGTGATACATTTTCCTTGTCTCCTGTAATGTGATTTCAGGCAAGCCGCTGGATGGCGAAGCCTCATAAGAAAGAGATGGTGTTGATATTGACAAGTATATGTTCTCTGAATCTGTAATAGAAGCCTGTAAATGGTAACGGATTGATCCAAACTCAAACAAGGTATGATCAACAGGCATAGGTCGTTCAACACTTTGCACACAGACAACTTTTCTGCTTTCACCTCAATGTAGAGACTGGATTGAATTCAATTATCGAAAAAAGATTTCCGCTTTCACTGGCAAAGAAAGAGAAGGAAAGATTAACCAACAGCAACGCACCTCTGCAATCCCGTCAGGATTTCCACCAGCGCCCGCGATCCGCTGCTGAAGAACGCCATGGAGCTAGCACTGTTACCGC

Coding Potentia
Explanation CPC Score
noncoding -1.05145
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0272500.1 4 25610052 C T
Osa04LNT0272500.1 4 25610349 T 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
Osa04LNT0272500.1 osa-miR5534b Translation 4.5 13.538 1 21
Osa04LNT0272500.1 osa-miR166a-5p Cleavage 5.0 12.263 1 21
Osa04LNT0272500.1 osa-miR166e-5p Cleavage 5.0 12.263 1 21
Osa04LNT0272500.1 osa-miR438 Cleavage 4.5 22.374 1 21
Osa04LNT0272500.1 osa-miR2104 Cleavage 4.5 13.161 1 22
Osa04LNT0272500.1 osa-miR5494 Translation 5.0 21.959 1 21
Osa04LNT0272500.1 osa-miR5509 Cleavage 4.5 15.822 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0272500.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272500.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272500.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0272500.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0272500.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0272500.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0272500.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0272500.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0272500.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
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