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

>Osa03LNT0205700.1

GATCAAATCAAGATGCTTTCAAATTCCAATTCAGAAAATAGAGATGTGTACAGGGGAAGGGGGAATGGAGCATACTGCATACACACCGTCAAGCTAGACAAACTGACAGAACCTAACAGACACGCATGAAACTTATAGGAAGCTAGCTAAACTCTACCGGTAGCTGCACATCGATCCAACATTTTCGTCATCATCATTGGCAAACACGCATAGACCCACTTCTTTATTGTAACCAACTGACTAGCTTCATCGCGTTCTTTATCTGCATATTTTTTATTCTTCAGTAACTCAAAAGTTTGGTCCAGCAGCGAGGATCTTGTCTGTCAGGCTGCTGTCTCCCCCGATCTTGTAGTTGGCGAACACCTCGAAGTTCTTCTTGAACAGGCCAGCCAGCTTCAGGAGCGTCTCCTTGTACGCGCCCTTGTCCGTCCAGGTGTTGATCGGGTCGAGGATTTCAGACGGGATGCCGTCGATTTCAGTGGGGATCTCCAGGCCAAACACCTCCGTCTTCTTGTAGTTGGCGGTGAGGAGCTCACCGGAGTGGATGGCGTCGATGATCTTCCTGGTATACGGCAGCCTGATCCGCTTGCCAACTCCGTACCTTCCACCGGACCAACCGGTGTTGACGAGCCACCCGGTGGCGCCATACTTCTGCATCTTCTCGGCGAGCATGGCGGCGTACTTGGTCGGGTGGAGCATGATGAACGCTGCACCGAAGCAAGCAGAGAACGTAGCCTGCGGCTCCTTGATGCCATCCTCCGTGCCGGCAACCAGAGCAGTGTAGCCACTGATGAAGTGGTACATGGTCTGTGGAAGGTTTAGCTTGCTGACAGGAGGGAGGACGCCGAAAGCGTCGCATGCCAGGAGAATGACGTTCTTCGGGTGTGGCCCGACGCACGGTATCTTGGCGTTGGGGATGTACTCGATAGGGTAAGCAGCGCGCGTGTTCTCGGTGACAGATTTGTCGGTGTAATCAACTTCACGGGTGTGCTCATCAAAGACGACATTCTCCAACACGGTCCCAAACTTGATGGCATTCCAAATATCAGGCTCTTTCTCCTGTGACAAGTCTATGCACTTGGCATAGCAACCACCCTCGATGTTGGACACGCCAGTGTCACTCCAGCAGTGCTCATCGTCGCCGATCAGCAGCCTGTTGTGGTCAGTTGACAGAGTAGTCTTTCCAGTACCTGACAGTCCAAAGAAGAGGGCGACGTCGCCCTGCTTGCCCATGTTGCAGCCGGAGTGCAGGGAGAGGATGCCCCTCCTGGGCATGAGGTAGTGCATCACCCCGAAGAGCCCCTTCTTCATCTCCCCGGCGTACTGCGTGCCGAGGATCACCATCTCCCTCCTAGCGAGGTTGATGTCTACGCTCGTCGACGACGTCATGTAGTGCGTGTACCGGTTGCAGGGGAACTGCCCGGCGTTGTATATGGTGAAGTCCGGCGTGCCGAACTCCTCCAGCTCCTCCTCCGTCGGCCGGATGCACCTGCCAAGCCCATTTCCCCCACATATCCATTCCGGTTACTACTGCAATTCTACTACTTAGTACGCCGCTGATGTGAGATGATCCCCCATGTCTTGGTAGGCATGCAATAGGATTCCAGCACACACACACAACATATAGTCACATATATCTCATAATCATGGAGCAGTATACGTCAAGGTGAACTTATCTGGTGGCGACACGAACGAGCGACCTAAAGATAGTGCAAAGTGACGGCTTCACTTACATGTTGTGCATGAAGAGCGAGTGGTACGCCCTGGCCGAGATGATACGGACTTTGATCCGGTTCTCCGTGTCCCAGTTCAGGAACTGGTCGTTCACAAACACCTTGTCAAGGGAGTTGAGGTAGTCGACGGCCCTCTCCCTGTTGGTGAGGAAAGTGTGCTCGTCCATCTCGATGTTGGGCGAACCCTTGCCCCACCAAAGCTCCTGCGCGGAGGCCTCATCCTTGACGATGCGCTTGTCCCTCGGCGACCGGCCGGTCTTGGCGCCGGACAGCGTCGCCAGCGCGCCGGTGGACGTGATGAACGACCCCTTCTCGTACTTGATCGCCTGCTCGTACAGCTCAGCAGGCGAGAGGTTGTAGAGCACATGGGTGAACTTGAGGGAGCTGTCGCTGACGGCGATGGTCGGGGTGACGTGCGGGTGGTGGTGGTGCACCGGCTGCGGGTGCGGCGACGGCGCGCCCTTCGCCGCGGCCTCGCCCTTCCTCGCCGGATCTCCCCTGACGACCTTCGGCCCGGTCTCACGCGTCAGCGACGCCAACGACGCGCTGATGGACTGGAGCTGCTGGCGCTGGCGCTCCTCCTCGGAGAGGGCGGCGGCGAAGGGCGAGGAGGCGCCGTCCTTGATGGGCGTGGTGGGCGCCGACCGCTTCCGCTGCAGCGAGTGGAGCTCGTCGATGGTCTGCGCCCGCACCGGCGCCGAGCTGTCGTCGTGGCATATCCCGTTCTCGTGCTTCTTCGTCTTCGCCCCGTGCGTCTCGATCCGCGCCAGCCCGTTCGGCGTGCTCGCCATGGCCGTCTCCGGTCGCGCGAAACGAGGCAGTCGAGGAGGAGATCAGCAACGCGATAGTGTACAAGATGACAGGACAGGAGTGGAGAGGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.566744
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0205700.1 3 8218985 A G
Osa03LNT0205700.1 3 8219015 T A
Osa03LNT0205700.1 3 8219228 A G
Osa03LNT0205700.1 3 8219850 A G
Osa03LNT0205700.1 3 8220308 T C
Osa03LNT0205700.1 3 8221002 G A
Osa03LNT0205700.1 3 8221519 A T
Osa03LNT0205700.1 3 8222379 T A
Osa03LNT0205700.1 3 8222957 G A
Osa03LNT0205700.1 3 8223242 G A
Osa03LNT0205700.1 3 8224039 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0205700.1 osa-miR5527 Cleavage 4.5 19.116 1 21
Osa03LNT0205700.1 osa-miR5837.1 Translation 3.5 10.904 1 21
Osa03LNT0205700.1 osa-miR7695-3p Cleavage 4.5 22.073 1 21
Osa03LNT0205700.1 osa-miR2055 Translation 3.5 24.773 1 21
Osa03LNT0205700.1 osa-miR2096-5p Cleavage 4.5 24.175 1 21
Osa03LNT0205700.1 osa-miR2867-3p Translation 5.0 23.928 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0205700.1 3 qTAA3-1 Morphological trait Shoot/Seedling C316 C63
Osa03LNT0205700.1 3 S34(t) Physiological trait Sterility nan nan
Osa03LNT0205700.1 3 qGW3 Morphological trait Seed C706 C12534S
Osa03LNT0205700.1 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0205700.1 3 qTA3 Physiological trait Eating quality nan nan
Osa03LNT0205700.1 3 Gy3a Others Others RG266 C63
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