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

>Osa09LNT0436100.1

GAAAACTTGTGGTATTCACCGAATATTTTACAAGAAAACTGAATACCAGAATTAACAACAGTTAGGAGGCATGTCAATTACAATCTGAAAGATCCACAAAGAATAAATTGTGCCTACTCAATCTCAATTCTCAGTAAGGAAAGACCTCAGACATGAACAATGTTCACAATTTGCAATATATTCAATTGTGTAACTGTGTAAACAAAGTCAGTAGTATGTTCAGCAGGTTTAAGACGAATATTTTTCCATAAGCTTTTCGACATGTAGAATTATGTCATCGATGTGAGGGCGCATTGCAGGTTGTGGCTGAAGCATCCAGGTAATAAACTGATGAAGTGCATCAGGGTAAGGAGGGCTGGGTCCTGCCGGCCACTTCAGCGTGCAGTTGACAATGGCTAATTGCAAGCTTCCTCCAGATTCACCGAGAGCATACTCAAATGGTGAAACATTGTACATGATAGCATAAAGGGTGCATCCTAGAGACCAGATGTCTGTCCTCTCATCGATATCGGCATGACTTGGGCAGTCCCACAGTTCAGGTGCACGGTAAGGCGCAGAGCAATGTTCAGCGGCCCATTCCTGCAATCGTAATGCTTCAGCACGAGAACGGATTTCTTTTCTTGCAGGCCTTGCACTTCCAAAATCCATTAAAGTTGCAAGAGGTGCTTGTCCTTTTCTGTGAGTTATAAGAACATTGCCAGTCTTAACGTCATTATGGGCATATGGTGGATCAAAACTGTGCATGTGCTTCAGTCCTTCACAGAGCTGTTGGAATATTCTCAAAACATCGATTGTTGAATAGAATTCCTTCCTGGATTGCATGACTTTGGCATTGTCAAACAGAGTACCATCGATATAGACAGGGAAGAGCAAGTAGGCTTCATGGTTCCAATCTCCCTTAACTGCTATCACGGCATGATCAAGAAGCGGAAGCAGGTTAGGATGGTTGAACAATGACGAAACACGGATCTCCTCCTTCACCAGATCTAGCTGTTCCTTGCTCTGTATCAGCACCTTCTTCATAGCATATGTCCCATCCTCTGAGGCGAGGGAGGGGCTCCGGCCGCGGGCGGCGTCGGCGGAGGCCTGGTGCTCCCTGACGAGGTAGACGAAGGCGAAGCCGCCCTCCCCAATCTGGCGCAGGACGCGGAAGCGGCGCTCGTTGATCCACACGTCGCCGCCGCCCGTCGCCGCGTCGTAGAGGGCGTTGAGCCCCGAGATGGAGCAGCCCATGCCCTCGCTCGCCGCCGGCGAACTCCAGCGGCCGCGGCCTCTGGTCTCCGGTGAGCTTCGGTTCGGTTCGGCAGGTCCACCAACCAG

Coding Potentia
Explanation CPC Score
noncoding -1.2023
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0436100.1 9 12431082 C A
Osa09LNT0436100.1 9 12431556 A C
Osa09LNT0436100.1 9 12433095 A G
Osa09LNT0436100.1 9 12433170 C T
Osa09LNT0436100.1 9 12433688 T C
Osa09LNT0436100.1 9 12434494 A 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
Osa09LNT0436100.1 osa-miR156a Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156b-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156c-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156d Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156e Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156f-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156g-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156h-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156i Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR156j-5p Cleavage 4.5 21.153 1 20
Osa09LNT0436100.1 osa-miR395w Cleavage 4.5 11.215 1 22
Osa09LNT0436100.1 osa-miR444b.1 Translation 5.0 10.051 1 21
Osa09LNT0436100.1 osa-miR444c.1 Translation 5.0 10.051 1 21
Osa09LNT0436100.1 osa-miR812o-5p Translation 5.0 17.413 1 21
Osa09LNT0436100.1 osa-miR3981-5p Translation 4.5 20.789 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0436100.1 9 qLG-9 Physiological trait Germination/dormancy G103 R1751
Osa09LNT0436100.1 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
Osa09LNT0436100.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0436100.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
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