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

>Osa04LNT0282400.2

GCTTGCCGACGCGTGGAGGGACATCAGGAACACCATTGCTGAGAACCTGTACCTCCGGTTGGCCGATTCTACTGGTATGCCCACCCTTTTTCCCCTGTTTTTGAACACGACCACCAGGTTACTATCTCCCACAAGCTTGCAAGCTACTGTATGTTTGACGCTGTAACTTCTGTTCACCCACATTCTTCACAGGGTCAAATTCTGGCCTGCTCCGTGAGCTCGCGCAACCGCCACCGCCTGCATCCTCGATCCGGCCTCCCCGTCCTGGCCGGCGGCCGCTCGCTCTCCCGCCTCGCCGCGCCATCGTCGGCAACATCTCCGCCACTTCGCCCGCGCCGTCGGCTTGCAGTGGCGGATCGCCTCCTCGGGTGGGCCGCCCCAGTGCCGGCTCGGTGGGC

Coding Potentia
Explanation CPC Score
noncoding -1.11901
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0282400.2 4 32240299 A G
Osa04LNT0282400.2 4 32241178 T G
Osa04LNT0282400.2 4 32241185 T C
Osa04LNT0282400.2 4 32242219 T G
Osa04LNT0282400.2 4 32242286 C T
Osa04LNT0282400.2 4 32242314 A G
Osa04LNT0282400.2 4 32242455 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0282400.2 osa-miR5832 Translation 4.5 23.562 1 21
Osa04LNT0282400.2 osa-miR2118d Translation 4.0 16.707 1 22
Osa04LNT0282400.2 osa-miR5496 Translation 5.0 17.446 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0282400.2 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0282400.2 4 qSN-4b Resistance or Tolerance Drought tolerance RM255 RM349
Osa04LNT0282400.2 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0282400.2 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0282400.2 4 nan Morphological trait Root RG476 RG214
Osa04LNT0282400.2 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0282400.2 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0282400.2 4 nan Morphological trait Root RM3276 RM3335
Osa04LNT0282400.2 4 qSHT-4 Morphological trait Panicle/flower CDO244 RG214
Osa04LNT0282400.2 4 nan Morphological trait Root RG476 RG214
Osa04LNT0282400.2 4 phc4.1 Resistance or Tolerance Drought tolerance RG476 RG214
Osa04LNT0282400.2 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0282400.2 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0282400.2 4 phs4.1 Resistance or Tolerance Drought tolerance RG476 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