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

>Osa03LNT0236400.1

CAAAAACCAACCAACCAATCAAGCATCTATTGTAATATATAAGTTTGTATGATTTTCTACAAATAGGCTCCCAAAAACAGTTACAAAACCAGCTCAAGGAGGGTACATCTAGTAATTTGGCACATTGTTCTGTTGTAAATTTGTTATGTAGTTACATTGTCAGTTCAGTTTCTTCTCGGTATATTGTATCATGACCGTCTGATAAACAAAATATTGCTGTGTGCCGTTTTGGGTTGTATACAGAGTGGGATCAGTTGAATCATAGCCTATCTTCCACCGAAAAGACGGTATAATTTTATGTCCTCGAAGATGATTTGTGAAATCCAGCCTCAACCACAAGTGAACATTTGCAAATTTTTTCGAACAGCCCAATCTCAAAATAAAAATTCCTTAAGTAGCACTTTGTTTACTATCGATTTTTTTCTCATTGACGCTAATCAATTCTGGCACCTTATCAAGTAATCTGTTCATCTCTTCTGAAAATTCAAGCTTGGCTCGATTTGTCTTTCCTCCGATGACTACTGTACTTCCGTCTTGCAATGCCCATATCTGAGAATGTGAAAGATAACTAATGCAGGTCGTTAACATGAGTGCACCAAATCCAGCATACACAATAGGAATTCCTGGATCAGTCTTAAGATCGAGACCGGTGCTACCGATGGCATCTTCAATAACTATTTCGTTACCATCTATTTCAATCGGTAGTTTTGAGCTTGGCCGACGAACCCCCACAAACTTACCCTCTTGATCATACAACACAATAGACTGCAGATCTCGAGCAAGCATCGATATTCCTTTGACATTGGAAGAACCGGAGTTTTCAAGTGGCAACAATGTTCCAAATAACTTCTTATCACCATTCAATTTCAAGGGGGCCATGGCCAAATTGAAAGGACCTTCACCATTTTTCTTTACTTGCAATGCTGAAAATCCCCAATCGGTTTGGTAGATTGTGACCCCACCATACCTCAAGGGGTCGTTCACTTTGATAGTCTTCCTCATGACCTCTTTGCCATCAAGGTCGAAAAGTGAAAGATCGCTATAGAATTGTGAAACCTCTCCACTATCATAGTACTCCATGTAGAACCGATTGACATGGACTTCAGTATTAAAAACATCAGGCACAAAAGAGAGAACTCCTTTAGGTTTCATCACATCTCCGATTACAAAGTTCAACCCTTGGGGTACATCCACCGATCCTTTAAAGCTCCCTGTTGCGCTAAGCGTGGCACCTGCCATGATGAAAATCATAGCTATGTGCACACCGATAGGCGCAAACCGACCAGCCAGTCCTTTGAAAGCATACAGAGATGGACCCTTAGTGAATACCTCATATCCATAACCCATCAATATAACTCCTAAATCCTGGATGGATGCGCGGGGAAGTGACTCCGCAAATTCTTGCTTCCGGATGCTTCCTGCTGAATGCATGAACGACCATCTTCTGGCAACCTTGACAATGGGGATTTGAGTGGTGTAAGTGCAGGCCATGAGCGACGCCGCGAGCAGCGCGAGGAGGCCGAGGAACACCGGCGAGGAGAACATGTGATCGAACCCGGGAGTGAGGATCCACCTCCACGTGATGAACCCGAACACCGGGTTGTCCTCGGGGAACTTCTCGAAGTAGTAGCTCGGCGCCTCCCCTTGATCAATCACCGTGCCTCAAGATTCCAGCGTTCAGTAACACATATAGGAACAAGTGAGGATAGTAGATAAACATGTAGAAACTCTTTTGTGAAGCCAATGCCTTTCCTTTTCTCTTTCTATCCATTTTGTGTTGATTTCTTCAGTTGAATCCTTCTCTTTCTTTTGTTGTTTGCTCGGCCTGCCTGCAGCCTGCCTCTGCCTGGCACCGCCCCGCCGCACCCACCCTGCCGCCTGCGGGCTACCGGCGGCCGTTAG

Coding Potentia
Explanation CPC Score
noncoding -1.02751
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0236400.1 3 31861116 C T
Osa03LNT0236400.1 3 31861563 G A
Osa03LNT0236400.1 3 31861949 T C
Osa03LNT0236400.1 3 31863002 T C
Osa03LNT0236400.1 3 31863555 A C
Osa03LNT0236400.1 3 31863837 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0236400.1 osa-miR5828 Translation 4.0 13.11 1 21
Osa03LNT0236400.1 osa-miR156k Cleavage 4.5 19.144 1 21
Osa03LNT0236400.1 osa-miR171g Cleavage 5.0 15.878 1 21
Osa03LNT0236400.1 osa-miR166h-5p Translation 5.0 12.332 1 21
Osa03LNT0236400.1 osa-miR171i-3p Translation 4.5 10.821 1 21
Osa03LNT0236400.1 osa-miR413 Cleavage 5.0 16.91 1 21
Osa03LNT0236400.1 osa-miR1432-5p Cleavage 4.5 12.666 1 21
Osa03LNT0236400.1 osa-miR1860-3p Translation 4.0 20.912 1 22
Osa03LNT0236400.1 osa-miR2275c Translation 4.0 11.085 1 23
Osa03LNT0236400.1 osa-miR2275c Cleavage 5.0 11.891 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0236400.1 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0236400.1 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0236400.1 3 qPES-3 Morphological trait Panicle/flower G249 G164
Osa03LNT0236400.1 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0236400.1 3 QSn3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0236400.1 3 nan Resistance or Tolerance Drought tolerance R1618 G164
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