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

>Osa04LNT0282100.1

CTGTCAACAAATCTTTTTAGTCTAAACTCTGAAGTCTGAACCACATATTTTTCAACTGGAAACACATGTAAGTAAATTTCATAGAGCATGGTAAAGCCACAGCTGCAGCCTGCAGAACAAACTACCGCAAGGCACAAGCCTATCAGTTCAAAGGGACACCATTCAGAGTCACAGGAGCAAAGCTAGAATGTACACATGGACGCATTTTTCCGGACCTGACCAAGAAGCACCCACGGTCACAGAGAAGTTTCTGAAGATAAAGGCAACATCTATATATCTATTCCACCACTATATCAGGAGGAGCAGTAACTCCAAAGGACTCAGCAGAAGCGTCCACCATCTTCTTGACCTCATCTGGGTTGGCACCAACAATCTTGTTCACCACCTCCTTGTCCTTGATGAGAAAAAATGTCGGCATGGCCTTCACTCCAAGCTTGGACGAAACACTCTGGACATCATCAACATCCACATAGAGGAACAGTATCTCAGGGTGTGTCTGAGCTAGCTCCTCAAACTTGTAGTTCATGGACAGCGAAGTCACACACCATGAAGCCCCAAAGTGGGCAACAACAGGGTGGCCTTCGTTGCTTGCTTGATTGACGAACAGATCCCATGACTCCTCCTTCTCAACCTTCACAACTTTGGAATTGCCAACCCCCTTCTGCTGCTGGATCTCCATATGGCCTAAGAAGCAAGAACAGAACCCTCTCCCTTTCACTCCGTGTTCTTGGTCTCCTCCTCCTCCTTGCTCCTCAAAAACATGGACTGCCTGAGGTTAGAAGATTAGTTTGCTGCCATTCCTAGAATTCCTGAACCCGACAACCAAACTCCACGCACACCACGCACGCATACGGAAGAAGGATCCGACCACTCCGCGGGCTGGGGGGCAGCAAAACCGGGGATTCCGGTAGGGAAGGGGAGCGCCGCAGTCGCAGATGAGAAGACTGGTGGCGGAACGCCGGAAAAAGCCGCGTCCGAAGGCCTCTGATCTTCTTGTGATGGGCTAGCTGGCAATCGC

Coding Potentia
Explanation CPC Score
noncoding -1.08586
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0282100.1 4 32019680 A C
Osa04LNT0282100.1 4 32019498 C A
Osa04LNT0282100.1 4 32019965 T A
Osa04LNT0282100.1 4 32020795 T C
Osa04LNT0282100.1 4 32021256 C A
Osa04LNT0282100.1 4 32021289 A G
Osa04LNT0282100.1 4 32021336 T G
Osa04LNT0282100.1 4 32021754 A G
Osa04LNT0282100.1 4 32021770 A C
Osa04LNT0282100.1 4 32022129 G A
Osa04LNT0282100.1 4 32022653 A C
Osa04LNT0282100.1 4 32022701 G C
Osa04LNT0282100.1 4 32020636 A G
Osa04LNT0282100.1 4 32019642 A C
Osa04LNT0282100.1 4 32020065 C T
Osa04LNT0282100.1 4 32021662 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
Osa04LNT0282100.1 osa-miR5544 Cleavage 3.5 13.696 1 22
Osa04LNT0282100.1 osa-miR5826 Translation 4.5 22.13 1 24
Osa04LNT0282100.1 osa-miR6245 Cleavage 5.0 11.911 1 21
Osa04LNT0282100.1 osa-miR1847.1 Cleavage 2.5 13.091 1 21
Osa04LNT0282100.1 osa-miR1846e Cleavage 4.0 13.644 1 20
Osa04LNT0282100.1 osa-miR5524 Cleavage 4.5 16.641 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0282100.1 4 nan Morphological trait Root RG476 RG214
Osa04LNT0282100.1 4 nan Morphological trait Root RG476 RG214
Osa04LNT0282100.1 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0282100.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0282100.1 4 qSC-4 Morphological trait Panicle/flower RG776 RG476
Osa04LNT0282100.1 4 phc4.1 Resistance or Tolerance Drought tolerance RG476 RG214
Osa04LNT0282100.1 4 phs4.1 Resistance or Tolerance Drought tolerance RG476 RG214
Osa04LNT0282100.1 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0282100.1 4 qSN-4b Resistance or Tolerance Drought tolerance RM255 RM349
Osa04LNT0282100.1 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0282100.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0282100.1 4 nan Morphological trait Root RM3276 RM3335
Osa04LNT0282100.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0282100.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0282100.1 4 qSHT-4 Morphological trait Panicle/flower CDO244 RG214
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