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

>Osa04LNT0270100.2

GCTATTAAGTGCCAGCATATCTCCCTTGTCACGTACTACTATGTTACAATGAATTCATATTCAAATGCCGCACCGTCAAATTGATTTAACATTCTTGAGATGTAATACAGTAATCGGTTTTTTCCCACCTTAACACAGTAATTAGAGCTTAATGATACAGTCTACAACCATCAATTCATAGCTCAAGAGAGATTATGCGACGAGGTCTTCTGGCTGCAGGCCTCCCGGTATTCATCTATTTCTTTGGGTTCCCAAAGAATTTAGAGAGCCGCACAGGTCCTTCCTCCTCACTATCACTGCCCCTGTGCTTGGATCTTGACCTGTACTTCTTATCCTTTTTTGTCCTCTTCGATCTGGACCGTGACCTGGACTTTCTCGAATCCCTATCCTCATCATCACTGCTTGATGATTCCGACGATGAACTGGAACTTGACTCTGATGAACTTCTATGCTTTCTCCTCTTTTTACTCCGTTTCTTTGCATCTTTATCCTTCTTCTCTGTATTTAAAATTTATTCAGCAGAAACACTTGAGAAATACAACATATGTAAGAAACTGGCGACTGAACTGCTAATTACACGGTCACCTTTCTTAGAAGATGATGACTTTGACCTTGAGTGGTTTCTTCCAAGAGCTAGCTTTTGTGCCCTTTCAGCATCCAGTTGAGCCCTATATTCTCTCATCATTTTATCTTTGTCAGCTTCCATTTCACCCCTCTTTAACTCGTCTTCCTTCTGCTTCTTCTTGAACTCCTCCCACGTGACGGTGTGCGTCTTGTTCAGGCTGGCCAACCGCGCCGCATGCCACTCTGGAGAATGAAATGAACCGTCCGTCATGCCGTCTTCGGGGGAGTCGGTGGCGCCCGGGGCGCCGGACGAGGAGCCCAGCCGCGCCCGCTGCATCGCCTTGTACGCCTGGTTCTTCCCCATGGCGCCTCTCCCCCTCTCCCCTTCCTCCTCCTCCTCCTCGTCGATTCTTCGCGCGCGCGAGCGAGCTCTCTCTCTCTCTCTCTCCTCTCGCGCGGCGAAGGGCGAGACCAGATTGGGGAGCGGAGGAAGAGGAGGGGAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.179887
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0270100.2 4 24842190 T A
Osa04LNT0270100.2 4 24842396 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
Osa04LNT0270100.2 osa-miR166g-5p Cleavage 3.5 5.59 1 21
Osa04LNT0270100.2 osa-miR1429-5p Translation 4.5 14.339 1 21
Osa04LNT0270100.2 osa-miR1881 Cleavage 5.0 13.404 1 24
Osa04LNT0270100.2 osa-miR2919 Cleavage 3.0 20.827 1 19
Osa04LNT0270100.2 osa-miR2919 Cleavage 5.0 8.988 1 19
Osa04LNT0270100.2 osa-miR2919 Cleavage 5.0 5.0 1 19
Osa04LNT0270100.2 osa-miR2919 Translation 5.0 5.169 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0270100.2 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0270100.2 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0270100.2 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0270100.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0270100.2 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270100.2 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270100.2 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270100.2 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