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

>Osa02LNT0171800.1

AGCGCGGCGGAGAGGAGGGTTCGTGCGACGGGGAGCGGTCGGAGGCCGGCGAGGAAGAAGGCCCTCTCCCGGAGCGCACGGGAGAATCGCGCCTTGACTAGCCTCTTCGCCTCCATCCCACTGCTGCGCATGTCGGCGGCGGCGGCGGCAGCAGGTCACGAAGGCAGCGAGGATGGAGTCGGCGGACGGGGAGGACGGGGAGAAGCGCGGCGGCGGCGCTCGGTGGCGAAGATGGGCGGCAGCTGGGGGAGATGGAGCAGCCATCTTGTGGCTCTGGGCCTCTGGCGTAGACTCACCATGTGCATCAGTTTGGTCATCTTGTTCGTCTTTGTTTGATGGTGATGGATCATCCCCTTCAATCAAGTATCCCTCCTCATTTGTAGTCTCGTTTATTGAGTAGCCCCTTTCAGCTGGATCAGCAGTGCCAAGATTTGCTAAACCTGACGCTAGGCCTGAAATAGGAGTATCAGCAGATTCCCCTGTATCCATAGACAGAATCTCATCACCAGTATCAAACAGGCCTTCTCTAACCAAAGAAGAATAGATGTCATGAGGATTGGCATCTGCACTTTGCAAGCTTGCAAAAAGTCCTGTCTGTTCAGAGTTATCTTCTTGTGCTGATCTTCCACTCGGTGCTTCACTTGTCCCTGTCAGCGTAACTTGGTCCTAGAATTTCAGATTTATTAACTGAAAATTTGTTGAATTTCAGTCATTAGCTGGATCATTTGCTAAATTTCAGTCATTCATTGAAACTTTTGCTGAATTTCAGAGTCACCAACTTGGCACAATCTCTGAAACTTTTGCTGAATTTCAGATTCTTTGACTGAAACTTCTGTATCTCTTTTGCTCTTTTTTAGATTCGTTTACTTTGGCGTCATTTTCTCTGGAACTTTGCCTAGTGTTAGAGTAACTAACTTGATAGCGCCATTTTTTTTTCTGGAACTTTATCTGAAATACTAACTTCTTGTTGCATTTACCTGGAACAACCAAACAGGTTACATATCTCAGACAGTGAAATTGGAAGCTCTGGGCATTCCAGCATACAGATCATTTTCTTTGGTTGAGCTCGAAGCGGCGACTAATGACTTCGAAGTTGATGGGGAGAGGCGGGGAACGCGGCGGAGACACTGAAGTTGATGTGGCCCTCCCGGGCGAGGAACCCGTGCGCCGCGGCGACAAGGTTGTCGTAGCTGGCGGCGACGGTCTCCTGCACGCGCGCGTGGGGAAGCGGCACTTGCGTGTCTCCGCCGCCGCCCTCCCCTTCTCCCACGTTGCAGCTGCCACCGCCTCTCCGCCAGCGCGCTCGCCCGCCAACGCCGCCTCGCCCTACCGACGCCCTCCCCTTCTCCCGTGTCTCCGCCACCGCGTCGCCGCCGCCGCCACATCACCGGCCGGCTGTCGGACCTCCTCGCCTCGGCGACCTCCTCCCCACCACCGGCTGGCCTGCCAGAGAGAAGAGTGAGTGAGAGAGAGAGAGAGAGAGGAGGAAGGGACAGGCCGGCCTGCTGATGTGGCTTGCTGACGTGGCATTCTGACATATAAGGCCCACACTGACTCAGTCGCCACGTCGGATCTAGTTTTTACTGGTTTATAAGTTAGGGGGTGTGTTATATCTGGTTTTTCGGTTGGTGGATGATTTTGTAACTGGATGACAAGTTGAGGGAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.196115
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
Osa02LNT0171800.1 osa-miR5804 Translation 3.0 19.684 1 21
Osa02LNT0171800.1 osa-miR156b-3p Cleavage 4.5 19.399 1 21
Osa02LNT0171800.1 osa-miR156c-3p Translation 3.0 19.399 1 22
Osa02LNT0171800.1 osa-miR156f-3p Translation 3.5 19.399 1 22
Osa02LNT0171800.1 osa-miR156g-3p Translation 3.0 19.399 1 22
Osa02LNT0171800.1 osa-miR156h-3p Translation 3.5 19.399 1 22
Osa02LNT0171800.1 osa-miR156j-3p Translation 3.5 19.399 1 22
Osa02LNT0171800.1 osa-miR156l-3p Translation 3.5 19.399 1 22
Osa02LNT0171800.1 osa-miR319a-5p Cleavage 5.0 11.937 1 21
Osa02LNT0171800.1 osa-miR1425-3p Cleavage 4.0 19.027 1 21
Osa02LNT0171800.1 osa-miR1846d-5p Translation 5.0 14.454 1 22
Osa02LNT0171800.1 osa-miR1859 Cleavage 5.0 16.497 1 22
Osa02LNT0171800.1 osa-miR5146 Cleavage 4.0 18.626 1 24
Osa02LNT0171800.1 osa-miR5508 Cleavage 4.5 17.174 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0171800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0171800.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0171800.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0171800.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0171800.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0171800.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0171800.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0171800.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171800.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0171800.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171800.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
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