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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa01LNT0042100.1

AAAAAAAGAAAAACCTAACCCTTTGAATCTTTGGTATCCTTCAAATCTTCGGTATCCTTCGAGTCTTCGGTACGCTTCGAATCCTTATGGGGAAGTCTATAAATTATACGCCCCTTGCTTGAATCATAACGACTTACTTCAATTTTGACCCTATCCCCCATCAGTATTCGTATAGAACTAGACCGGATCTTTCCTGAAATATAGCCCAGGATGATGGTGTCATTCTCTAGGCGAACGCGGAACATTCCGTTGGGTAGGGCTTCCATAACTAAACCCTCGAAAGTAATTTTTGCTTCTCTCGGGATTTTTTTTTCTCTCCTATTTTTCTTTTCTGTCATATTTTTTTTCTCCTATTTTTCTTTTTTTATTTTCAAATAAAAAAACGTTGTATTTTTGTTTGAAAAATAGGAAGTTCAAGATAGAATTTGGGTACTATAACTATAGGTGGGGCGATTACCGCTATAGGCGGGGCGATTACCATATATAACATAAGACTTCTCCCCCAATTCTGTTTAGTCGAGCTTCTCGATCTGTCATTATACCTCGAGAAGTAGAAAGAATAGCAATTCCCATTCCGCCCAAAACCTTAGGAATTCCTTGATAGTTGGCATAAATTCGTAAGCCAGGTCGGCTGATACGCTTTAAAAAGGTTCTAGTTCTATATATTCCCTTTCTAGTCTTTCTCTTTTGATGTCGCAAAGTTGAAACCAAGAAATATCTGTTACTTTCCTGATGTTTCCAAACACTTTCAATAAAACCCTCTCGTAGAAGTATTTTAACAATGTTTTCGGTAATATTTGTAGATACTACCCGAACAGTTCCTTTTTTATTCATGTCCGCGTTTCTTATAGAGGTTAGTAAATCAGCAATAGTGTCCTTGCCCATAAGACTCTAATTCTAGGTTCCTCCTAATTTTTCTATAATCAACATGTTCTCTTTTTTCTTTTCGTTTTGCATTCTAAAGCATATACGTGAAACACAATCTACTAATTTTTTATTTGATCTATATCTTGTCTACTAGTATTTATAATACTTCAGGAGCTAATGAAACTATTTTAGTAAAATTCAATTCTCTCAATTCCTCGGCGATCGCGCCAAAAACGCGAGTTCCTTTTGGATTTCCTTTTTGATCAATGATAACCGCTGCATTGTCGTCATAGCGTATTATTATACCGTCTTCGCATTTGAACTCTTTACATGTACGTACAATTACAGCTCGAATTACTTCGGATCTTTCTAGAGGCATTTGGGGCACTGCATCTTTGATTACAGCAACAATAACATCACCAATACGAGCATATCGCTGATTACTAGCAGCTCCTATGACTCGAATACACATCAATTTTCGAGCTCCACTGTTATCTGCTACATTTAAAAGGGTCTGAGGTTGAATCATATTATTTTGATTTCAATTTGTTATTTCAATGCAAAAGGATGAAAGAAATATTGTCTTTCCAGAAAGAAGAACCTGGTTTTTTATTTTCAATACTAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.481974
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0042100.1 osa-miR5143b Translation 5.0 13.877 1 24
Osa01LNT0042100.1 osa-miR5828 Cleavage 4.5 11.859 1 21
Osa01LNT0042100.1 osa-miR156k Cleavage 4.5 7.896 1 21
Osa01LNT0042100.1 osa-miR156k Cleavage 4.5 5.702 1 21
Osa01LNT0042100.1 osa-miR169d Cleavage 4.5 9.252 1 21
Osa01LNT0042100.1 osa-miR1424 Translation 4.5 13.069 1 21
Osa01LNT0042100.1 osa-miR1850.1 Cleavage 4.0 9.07 1 21
Osa01LNT0042100.1 osa-miR2099-3p Cleavage 4.5 18.168 1 20
Osa01LNT0042100.1 osa-miR2876-3p Cleavage 5.0 14.928 1 21
Osa01LNT0042100.1 osa-miR2920 Cleavage 3.0 18.365 1 23
Osa01LNT0042100.1 osa-miR2928 Cleavage 4.5 16.833 1 20
Osa01LNT0042100.1 osa-miR2928 Cleavage 4.0 9.672 1 20
Osa01LNT0042100.1 osa-miR5143a Translation 5.0 13.877 1 24
Osa01LNT0042100.1 osa-miR5502 Translation 4.5 16.204 1 22
Osa01LNT0042100.1 osa-miR2275c Cleavage 4.5 7.594 1 23
Osa01LNT0042100.1 osa-miR2275c Cleavage 4.0 10.321 1 23
Osa01LNT0042100.1 osa-miR2275c Cleavage 4.5 8.63 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0042100.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0042100.1 1 nan Morphological trait Root RM212 R2417
Osa01LNT0042100.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0042100.1 1 qCC-1 Physiological trait Source activity RG541 RG101
Osa01LNT0042100.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0042100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0042100.1 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0042100.1 1 gpy1 Others Others RG541 RG101
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