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

>Osa04LNT0253400.1

CTTCATTTGTAAATTCATTTATACGTGGAAGATGGACATAACATTATCAATCAAATTAACTATAAACACTGCATAGGTACATAGTTTTTTTGATAGATAATTTTGGTGCAGGGCATATTGGCATATAGACTTCTTGTCTATATATTCGCAAATTTGATGACATTGTATCTACTTGGACACAATTAATATAAATTAGTTGTAGCTTATCTTCTATGATAGTCATGCACTAACAAATATCTCTAAGTCAATAATATAGTCTCTTCATGATGAGTGTATACATTTATTCTATACGGAGAATATATAATTGTGCCTTCTACAAATGTGGCGACAATTAGACAAAGAGAAGATATATGAATAATTCTATTACTCATTTGCCCAATAAATGTATTTGCTACATGCAACTACTTACATGATGTCCTTTTATGCAACTTTCTACCGGTTTACTTCTAGTAAATAAAGTGCACAAAACGAGTACAAAATAGTAAAGAATGGTTTTCTATACACACCTTTTATTACAATCCTAGCAATTAACATGATTTTCTGCTATTTAAAGGTATGTGTAATTTACAGAACTACTAACCCACAGAACAATCAATTACCCCAAACAAACAATTGCCAGGAAATAAACCATAAAATATGATGCTTCCAAAAGGGGTGCTAAAACAAAGGTTTCACAAGTCCATGGAAGCTCTTGTGCCTAAAAACAATGTTTCTAGGATTGATTATGGTTATTCAAGAAACTAACTAAATAGTTAAAGCAAAAACTTAGAAATACGGGACTAAGGTATAAATCCTTAATTCTTCTCTATTTGGCGTAAACCCAATTCATGAAGGTTCAAAATATAAATGGCGAATGTATATTCCCCGTAGTTTCTAATGTCCCATAGGACTTTTCCACATAATTTCCGAGTTCCGCATAATGCCTTGGAAACCAAGGACTTTTGAAATAAAATGCCATTTTCGGACCAAAATCACGGTTCGTGCCCGACTCCTTTTAATAGGCCAATTTCTGCTTGGCCCACCTCCTTATACTGGCTAGCTTGAAAACCTGGCCAGCCCATCTCATATGTTGCCCAATGGGCTATTACGACCTTCTCCCACAAGAAGTGGGTGAGGTATGATCCAATTGCCATTCTTCAATGGAGATGAC

Coding Potentia
Explanation CPC Score
noncoding -1.25081
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0253400.1 4 10001053 T A
Osa04LNT0253400.1 4 10001439 T C
Osa04LNT0253400.1 4 10001992 T C
Osa04LNT0253400.1 4 10001874 A T
Osa04LNT0253400.1 4 10002027 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0253400.1 osa-miR812r Translation 4.5 10.922 1 24
Osa04LNT0253400.1 osa-miR5831 Cleavage 4.5 19.603 1 24
Osa04LNT0253400.1 osa-miR171g Cleavage 5.0 16.103 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0253400.1 4 qCER4-1 Morphological trait Shoot/Seedling RG190 RZ69
Osa04LNT0253400.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0253400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0253400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0253400.1 4 qPEN-4 Morphological trait Panicle/flower RG190 RG908
Osa04LNT0253400.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0253400.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0253400.1 4 nan Morphological trait Root RM261 RZ69
Osa04LNT0253400.1 4 nan Morphological trait Root RM261 RZ69
Osa04LNT0253400.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
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