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

>Osa04LNT0278600.1

TTTGTGTTCAGTGCATGGATACATTTTAATTAGTTGCTGCGCCGAATTCAAATTGATACCAATATTATCTGTATGTTTCAGTTTGGCCGTATCCAAACGAAGGGATTTGATTTCCTACTATCAGAATAGCATGCACATGTACCATCATGCTGTATGCCATTATATATGTTTAGACCAAAGTCGTGTCATTAAAAGGAGCCTAGGCTTGCCTCATGCCAAGGCAATTCAAAGCCCATTAGATTAGACCATTAACGGGTTGCTTCTTTGGGGTTGCTCAGTTCTGCTAAATGTCGACTTCTGGCATGACAGGAACCTCCATCTTTTCCTCCAGAGTTTGCGAGAATTCAGCGCAACCGCCATGTAGTATGTACAGTTTTTCTTTTTCAGACTTTCAGATGCTTATGACCTGATGCTACCGAAAATTTTCGCTCTTTTGCCGGATAGACGGGCAGGGGGATGGATGATGATGCCTGACAACTGCGATTAGACATTTAAGTACGAAACTAATAGCTATCACGTAGTACTAAAGTTGGTGTTCTTAACTTCTTATTATTAGCCGGTGTCTGCCAATCCGCGTGTCCGTGTCATGGCCGTCGACGTCTCTATTGCGCGGCCGCGATCGACGACGACCGGCTGGACCACGCCGACGGCGGCCTCCACGCCGGCGGCTTTCGCTGCTTCGTCGGGGCGCGTGATTCCTCCAGCTCGGATTTCAGAATCTCGAACATCACCTGCACGTCCTTGTATCCACAGGTTTGCACATCCTCGTGAAGCTTCAGTATGCTGCCTCCACTGCCTGGCTTGCGGGCGCGGACGCGGGTGGAGACGGCGGCCCACGCGCGGCGCGCCGGGAAGACGACCTTCTTCCGCCACCACGCCATCACCGCGCGCACCGGCGCCGGTATCCTCGCGGCGGCGGCCAGCCTCGACGATCGACGTACGCGCGCTCGACGATCTATCTCACACACCTCACCGGCCGCGCGCGCGCGCGCGGGTGGCTGCGGCGCGGGCTCGCTGGCTGCTGCTGATGGAGTAGTGGTGTGCGTGCGTGTTTGTTTGTTTG

Coding Potentia
Explanation CPC Score
noncoding -1.3935
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0278600.1 4 30446591 A G
Osa04LNT0278600.1 4 30446620 A C
Osa04LNT0278600.1 4 30446852 A G
Osa04LNT0278600.1 4 30447136 C T
Osa04LNT0278600.1 4 30447841 G C
Osa04LNT0278600.1 4 30448990 T A
Osa04LNT0278600.1 4 30449162 A C
Osa04LNT0278600.1 4 30449748 A G
Osa04LNT0278600.1 4 30449814 T C
Osa04LNT0278600.1 4 30450436 A C
Osa04LNT0278600.1 4 30450694 C T
Osa04LNT0278600.1 4 30451208 A G
Osa04LNT0278600.1 4 30451303 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
Osa04LNT0278600.1 osa-miR5539a Cleavage 5.0 23.636 1 22
Osa04LNT0278600.1 osa-miR5539b Cleavage 5.0 23.636 1 22
Osa04LNT0278600.1 osa-miR439a Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439b Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439c Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439d Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439e Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439f Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439g Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439h Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR439i Cleavage 4.5 14.281 1 21
Osa04LNT0278600.1 osa-miR2928 Cleavage 5.0 23.657 1 20
Osa04LNT0278600.1 osa-miR5510 Translation 5.0 20.939 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0278600.1 4 nan Morphological trait Root RM3288 RM5503
Osa04LNT0278600.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0278600.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0278600.1 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0278600.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0278600.1 4 nan Morphological trait Root RZ23 RM255
Osa04LNT0278600.1 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0278600.1 4 nan Morphological trait Panicle/flower RM303 RM255
Osa04LNT0278600.1 4 qPN-4b Resistance or Tolerance Drought tolerance RM317 RM255
Osa04LNT0278600.1 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
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