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

>Osa04LNT0246200.3

ACATTTCATCGAACACCTTGTGTGCATGCTTCATCATCACCGGTTGGAACCGAAGCCGGCGTAGCTGACCGCGGGAACCGTCGCTCGGGCCGCCTCTACTTCCTCTGCTGCCTTGGATCAACGTCGGGAACCACGCATCGAACACCTGCAAGCGTCGCCGACCGCTAGCCGCCCCTGTTTCGTCCGCACTGAGCTACGCGCCGCCGAACTTCGCCATCCCGCTGTCTCTCGATTCCGAGGGAGTGGTTGAGTTGACTGCAGAACAGGGACATCAAATCTGTGAGCAAGGTACAAAGAGGATGGTACTGTAAAACAAAATTCAGAGTTCAGAGCCAGCAGGAGTATCAACTTCAGAGAAAATAAAACATGAGAACAAAATTCACAATGCAGGAGAGTGAACCTTGGTGATGCACAACGATGCCAGGTTCGTCGATGCCAAGATGATGCTTACCAGCCCCGTATCACTGGGTTATCTGAAACAGCAACAGGATAATCAACCTCCCATCACCATGGTAAGTTGAAGAATTTTTGAGATTTAGAATGTCGAGAGGAGGATTCTTGGGTGTGTTCGGCCGCCATGGCGAAGAGAGGCCGGTGGTGTGGATCCTTTCCCCATCTGTCGCCTTGTCCATAGCCTCCTCCGTCTTCTCAGATTCCAACCTGGTCGGGGATGGCGACGACGAAATGGACCCTCATCCGTTGTGCTGTTGTTGTGCACGAGCAGGGTTTGCAAGTTCGGTTGCCATAGAAATTTCGGTGGTTGCCGAGAATTTGAGACTTTCGTGATTTTCGGACCGAAATTATTTAAATTTTTAACATATTTTGACTGAATTTGAACAAATTTTGACAAAATTTGCAAATATTTGACAAAAAGCCAAAAATTCGGGGAAGATTTGTGCTTGCCGGTGGGGGCCGAAAATTACCAAAATTTCAAACCATGTGCATGAGTTGGAAGAACAAGGAAGAGAGGTGGCTCCGCCGTGAGATCGAGCAACGGAGGAGGCGGGGACGAAGGCAACGCGCGAGAGGCGGAGATGGCAGCGGTGGAAGGAAGGCGGGGGAGCAGAGGAGGAAACGGTGGCGAGAGAGAGGAGGCGGCGGTGGCGGGGAGAAGGGCAACGATGGAACTTTGCAGTCGCACGAAGGAAGAATTGAACTTCGGCATGGATAAAATGGAAAAAAAAAATGAGAACTGAAAATCTGCTTAGAGGTTTCCTTGTGTAAGCAATGAATTGGAAAAGGACAGGGCGTTCTTGTGTTTTGCTGGTTAAGGACTGTATTTTAAAAGGTGCAGATTGTCTACCAAAATGGTCCTAATGTGTGTATCATAGAGGCCCAGCACAACACCTGGGGATACACAGAATAGCATGCCCCAATGCTTACTGCATGTCATCTGTATGTCCTTATATTGCAACATGGCAGAACGTTTTCACTA

Coding Potentia
Explanation CPC Score
noncoding -1.10578
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0246200.3 4 938362 A G
Osa04LNT0246200.3 4 938892 A C
Osa04LNT0246200.3 4 939120 G A
Osa04LNT0246200.3 4 939140 G A
Osa04LNT0246200.3 4 939546 A G
Osa04LNT0246200.3 4 939608 G A
Osa04LNT0246200.3 4 940895 T C
Osa04LNT0246200.3 4 940911 A G
Osa04LNT0246200.3 4 941072 A G
Osa04LNT0246200.3 4 941308 G T
Osa04LNT0246200.3 4 941545 T G
Osa04LNT0246200.3 4 941572 A G
Osa04LNT0246200.3 4 941662 A G
Osa04LNT0246200.3 4 941821 T A
Osa04LNT0246200.3 4 942068 C T
Osa04LNT0246200.3 4 942185 A G
Osa04LNT0246200.3 4 942278 A G
Osa04LNT0246200.3 4 942315 C G
Osa04LNT0246200.3 4 942327 A G
Osa04LNT0246200.3 4 942581 T C
Osa04LNT0246200.3 4 942658 T C
Osa04LNT0246200.3 4 942783 G 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
Osa04LNT0246200.3 osa-miR5538 Cleavage 5.0 24.799 1 22
Osa04LNT0246200.3 osa-miR2864.1 Translation 4.5 22.077 1 21
Osa04LNT0246200.3 osa-miR2865 Cleavage 5.0 24.932 1 22
Osa04LNT0246200.3 osa-miR5072 Translation 5.0 18.911 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0246200.3 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
Osa04LNT0246200.3 4 qOVA-4 Resistance or Tolerance Insect resistance R1854 C946
Osa04LNT0246200.3 4 nan Resistance or Tolerance Other soil stress tolerance C946 R1854
Osa04LNT0246200.3 4 qCTS4-1 Resistance or Tolerance Cold tolerance RM335 RM261
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