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

>Osa02LNT0171000.1

GACGCCTCCAACGCCCAGCGGCCCAGCCCCACATGGTGGCCCCTCTCTCAATCTCCACGGTAGTGCTCTGCCATGGAGTACAGTGGCGATGGGGTTGGCTGCTGCTCTGCCATAGTGTACGGCGGCAACGGGTTGGCTGCTGCTCGCTGCTCCACTACGCAGAGAACCCCATGAGGACCAAGGGAGGCTGTGCTCTTGGATTGGTGTCTCTTCCACATCGCATCTTGTTTTGGGGGGAGGGAGGGGGGCATCTTTGCCTCCCTCAGCTACTGCTCACTGAGGTATATAAGATCAGCTGGTTTTATCACGGGGATGGACGTTGAGTTCATTACACGTGTGGTGCTATGGTATATAGATAAACTGAGATGGTTATGTCACTGGATGTCTGTTCGCTTGATTTCCTATATATGGTGTTCCTCTGTTTTTTTTTCGAGACAGTACTTTCCCTAATCGCATCATCCCGTACGCTCTGATCTTTTCCCGTTGTGCCTTGCTCTAGGTTTTCCCATTGTGATGTCGACGTTCTTCCGACCATGTCTATGCTAACTGAATTTGTTTTTTTGTTTTCTACCTTCTAAGTTGCGCGGCCAACCCTTACCGAGACGTGGTTTTGCTGCCCGCCGAGCCATCCACATTGCTCCTTCCACTTCTCCGCATCCGCTCGTCGTCCTCGTCCTCTCCGCATCCGCATCTCTTCCCAATATTTTTGTTCTTCACTGTAGCTGCACGTACAGCGAGCTTGAATGGCATCACATACTCCCCATCCCGTCCTCAGCATCGGCGTCCCACATGGCATCGCAACGTCGCCTTCTTCTTCGGCATCAGGTCAACTCGGTGGCTCACTGCTAGCACAGATGGCGGGCGGGGAGTGGATCTTTCAGTTCTTCCTCAGCGACTTGCCCGACGGTGTTGCTAGCTGACGCAGCCATTTCCGCAATGGCAGAAATCGGTGTACGATCTACCTATTCTCCTCCGCATACAGGTAAACAGACGGCTAGACTTCATGATAATTCATGCTAATGTTGGGAGGGGCAATCCACTATGCTCAGCTCATGGATCTTCAGGAATGGAGCTGCCAGCATATAAATGACAAACAAATACAAGGAAAAATACTCCATGTGCAGCAACGATTAATGCTTTTGTATGAGCTGATCTTAGTCTCTGAAGACTGTGCTGTGGTCTTCATCTCTGAAGGCTAAGCTGTGTTAGGTTGGAGCACTCCGATTCAACTCTTTTGCCCACCAAACTAACTAAGCCAATTGAGTGCTGCAAAGCGCAAACAGTATGGTCTCCATAGCCTGTGCAGATATAGCTCTTACATTGGTGTTCTGCCACCATAACACTGCCAAAGCTGTTTCCAAGCTAAAAATCATGCTGCAGTGATGATTCAATCCCACACTTGAATAATTGTTGTTTCCTGCA

Coding Potentia
Explanation CPC Score
noncoding -1.13056
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0171000.1 2 22836595 T C
Osa02LNT0171000.1 2 22835797 G A
Osa02LNT0171000.1 2 22836126 T C
Osa02LNT0171000.1 2 22836382 A G
Osa02LNT0171000.1 2 22837891 G 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
Osa02LNT0171000.1 osa-miR5837.2 Cleavage 4.0 15.307 1 21
Osa02LNT0171000.1 osa-miR166g-5p Cleavage 5.0 22.497 1 21
Osa02LNT0171000.1 osa-miR1425-5p Cleavage 4.5 13.401 1 21
Osa02LNT0171000.1 osa-miR1320-5p Cleavage 5.0 13.912 1 21
Osa02LNT0171000.1 osa-miR2918 Cleavage 5.0 19.464 1 21
Osa02LNT0171000.1 osa-miR1441 Cleavage 5.0 17.566 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0171000.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0171000.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0171000.1 2 qCA-2 Resistance or Tolerance Blast resistance RG25 RZ961
Osa02LNT0171000.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0171000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0171000.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171000.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171000.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
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