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

>Osa04LNT0272700.1

AGTTTACAGTAAATTGTCCAATAAATTGGATATATATAGGTGGATATCATGTATCCATTCTAATCAACATTATGTACTAATGTACAGTACTACAGTTACATCATTACACGAATTACTATCATTTTACACCCTATTTAAATTCGAAAGTACAACTTTATCTATTGATTTTCATGCAGATTTTGGAGGAATTCCTTGTACCACAGCGCAGATAGCTTTGGAGATCTTTCCTGTGTTCTGTAGTCTATGTAGTACAGTCCAAATCGAAGGGTGTACCCAAACAACCACTCGAAATTGTCAACGACGGACCAGGCGAAGTAGCCACGAACATCAGCTCCGTCCCTGATAACTTTGGCAAGTTTTGTGAGATAGCCTTCCAGGTACTCTATCCTATCCTCGTCATCAATCCAATCCTCTGCGTCGGTGTAACTATCTCCACCTTGCGCGTATCCGTTTTCTGTGATGAACATTGGCAGGTTGTTGTATCTTCTCATGAAGTACTTGACCATCTTCTCAATCCCGTCCGGTACCACGTAGAAAGTGGGCATCGCTGTTGGAGTTCCAATGGGAAGCCCGTTGCTCTCTCCAGTGACAGCCGCCAGCGCGTGCTGCGTCTCCTGCCCCTGTGGGCAGTCTGAGAACATGCAGTCCCTGGCGTACAGGGTCGTGTAGTGGTTCACCCCGATGAAGTCCAGCTTGTACCGCAGCTTCCTCCTGTCCTCCGGCGAGAAACTCGGCAGCCTCCCGCCGAGAATCTGGCGCATCTCCGGTGGGTAATCGCCGTAGACCAGTGGATCAAGAAACCACGGAGTTTCGAACGCCAAGGCTCGCTCGGTGGCAAGCCGGTCCTCGGGGACATCTCTCAGCGGCTCGTACCAGGTGCTGTACAACACCATGCCAATCATTCCTCTCTGCTTGCTCTGGTACTTTCTCTTGTATATCTCGATGGCGGTGGCGTGGGAGAGTATCACGTTGTGGGCGGCGACGTAGGGCTCGGCGTGTGAGTCGCCGCCGCGGG

Coding Potentia
Explanation CPC Score
noncoding -1.17257
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0272700.1 4 25684621 A C
Osa04LNT0272700.1 4 25681453 T C
Osa04LNT0272700.1 4 25681747 G A
Osa04LNT0272700.1 4 25685282 G T
Osa04LNT0272700.1 4 25685985 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
Osa04LNT0272700.1 osa-miR5539a Cleavage 2.5 16.602 1 22
Osa04LNT0272700.1 osa-miR5793 Translation 4.5 13.808 1 21
Osa04LNT0272700.1 osa-miR5539b Cleavage 2.5 16.602 1 22
Osa04LNT0272700.1 osa-miR1852 Translation 4.5 19.579 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0272700.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0272700.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0272700.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0272700.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0272700.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272700.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272700.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
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