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

>Osa06LNT0352700.3

TACGTCCGAGGAGCAGCGTGCAGTGAAAACGACATTGGCCCACAGCACACAGACACCTGGTAAAAAAGAGGCAACGTAAATACTTGCGGGAACGAACACGCCAGGTATCGCATGAATCACCTACTATTTGCACCGTACAGAACAAGGAAAGGATGCACAACTGCCAAAATGAAAAATGTTCCCTTCAGAAAATACCAAGTAACAATGGTCGGAGCATATGAGACGAGAACGGAATGCCATCATCCATGTTGCCTATCAATCAACAATCCTAACACAGGTTCTGTGCTAATACATCAACTTGAGACTTCTGTGCGTCTACGGGGAAAATCTGAATAATTCCTCATTCACCTTCCAAGGATGATTACATGGGACAACTCACAGGAGAAAGAAATCTAGAATCGACTGGGATTGATGCCCGCTGTTCAGAAGAAATCCTGTGTTGCCACACCACAATCTATCACAGGTTCTAACAAAGGAGAGATTATATATGAAGTATATATCCCCTTGTTCCGCATGTAGAGAGAGCACCAATGTTAGCTGGATGATACTATTGAGTAACGTGACCACCTTCCATCACTGGTCCTATGGAAGACCCGAGGCTTGTATTTCGGAAATGTGTCTTGCCAATATGGATTTTCAATCAAGTATCTCCATATCCTTCTCTCATTTTCCACAAAATGTGGTGGCTCGGCAGCTGGAGAGGTGGAGCACTGCAACAAGACCTCAGAGTCCGATAGCTGGTTAAGTGATGATGCCATTTCAGCCCAATCCGGCATCCTATACGAGCAGAACAAGATATCGATAGAGCATATAGGATCATCAATTAAGTGATTACCCAGAAAAGTATGCATGTGCTAGTATTTTGAATTGTAATAGTGTGTGTTCCTATGCACATGTGATGTATCACAATATTTCTGAGTTACTATTGCATGGTTGACGGACTTTAAAAAAAAAACTATTGCATGATTGGGAGGTACCATTTTTTAACACAGCTGAAAGGAAGGAATTTTCTTGTAGTCCTGTACAGGGTTTGATTCGCTAATGAACAGAAAATATGACACATGATTACCGTTATTTTAAGCAATAATTAGAGCTATCAAAATTCCCATTATAACAACAAATTGATCACATATTTTCAGTTACCCAAACTACTGCGGGTAAAGTGATGGTGTTAAGAATTTGAGGGAGTTGATTTCTAGACTTTCAGAAGAATTGAGGTTGTGGAATAAACTCTTTCCTTCGTAAATTGGATGGAAATGTTTTAAGATACACACCAGCAGGCAGGTGCAATTTCAAAAGCATCACTGTGAGTATCATAAGTCTCTAGTAGCCTTCCTTGCCAATTTGGATCATAAGAAGAAACGCTCACACGAATTCTCCTAACTATTTCATCTGGACACCTTGAATTCATTTCAAAGCTTGCTGGATTAACAGCCCCAGATGAGGTCTCCACCACAAATCCACCGATTATTGGCCGTGTATTCCCGTATGAATCAGTTGTGGTATTGCTCCCAAGGACACAAAATGTACGAAGATGGAATTGCTGCCGGGACTTATACAACACCTCAAGTATCCTGCAACATAGTGGATAGGAATACCCTTCCTGTTTGATGTGCTTCCTTCCAGCAGAATGTACAACCTTTGTAGAAACATCATCAAAGCCACCAATCAGGTGAACATCAAACGGTGCATTGTCATCACCAAGTAATTCTAACATCTGTTTGAGCCCTCCCTCCACAATTTTTGGGAAGTCCATGTGGCTAATGGAGGTCATTCCAGTCTTGTTGTTGCGAATTACTACACCCACGCATGTAGTCACCTCATCTGTGCCCACTAACTCGACGCGCGCCGGATCAACCGTGGCGAACTCCCGCTGGAACACGTACACGTGCCTCGGCGCCGCCGCCGCCGCGGCGTCCGCATCATCCTCCTCTGGCCCCGACGAGATCCGCCTCTCCGGCTCCGCCCTGAGCCTCTCCGATGCGGCGCGGAGCCCGGGGTTCCCCATGAGCGCCGCCACCAGCTCCCTCCCGCCGCTCCCCCCGCGGGAGGAGCCGAAGGTGGGGGAGGCGGAGGCGGAGACGGGCTCGCCGTCGACGAGGAGCATCGCCGATGTCGCGTCGCCGGAGTCGCCGCCGCGTCGCGGAAGGGAAGTGGTTTGCTTAATCGATTTGATTAAGCGGCCTAATCACTTCGTTTCGTTCCATCCTCGAGGAGGATTTGGATC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.958433
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0352700.3 6 24814478 C T
Osa06LNT0352700.3 6 24814556 G T
Osa06LNT0352700.3 6 24814847 C T
Osa06LNT0352700.3 6 24816814 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
Osa06LNT0352700.3 osa-miR5827 Cleavage 5.0 18.678 1 21
Osa06LNT0352700.3 osa-miR395b Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395d Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395e Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395g Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395h Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395i Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395j Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395k Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395l Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395s Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395a Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR319a-5p Translation 4.0 23.748 1 21
Osa06LNT0352700.3 osa-miR395m Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395n Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395p Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395q Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR395v Translation 5.0 16.471 1 21
Osa06LNT0352700.3 osa-miR395r Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR1442 Cleavage 5.0 18.317 1 20
Osa06LNT0352700.3 osa-miR2101-5p Cleavage 5.0 18.485 1 22
Osa06LNT0352700.3 osa-miR2864.2 Translation 3.0 13.23 1 21
Osa06LNT0352700.3 osa-miR395y Translation 4.5 16.471 1 21
Osa06LNT0352700.3 osa-miR3981-5p Translation 5.0 19.51 1 21
Osa06LNT0352700.3 osa-miR3981-3p Cleavage 4.5 19.544 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0352700.3 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0352700.3 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0352700.3 6 qDLR6-2 Resistance or Tolerance Other soil stress tolerance RM1340 RM5957
Osa06LNT0352700.3 6 ostd(t) Physiological trait Sterility nan nan
Osa06LNT0352700.3 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0352700.3 6 RPLD4 Physiological trait Eating quality RG424 RG172
Osa06LNT0352700.3 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0352700.3 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0352700.3 6 prt6.1 Resistance or Tolerance Drought tolerance R2549 RG716
Osa06LNT0352700.3 6 gw6 Morphological trait Panicle/flower RG424 R2549
Osa06LNT0352700.3 6 qGL-6 Morphological trait Seed R674 R2549
Osa06LNT0352700.3 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0352700.3 6 nan Physiological trait Eating quality RM253 RM162
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