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

>Osa03LNT0193200.1

AGATCTGGGAATTGAACCCAATACCCCTACTCGGCGGTGACTAGTACACCTTATCTCTTCGAAACCCTAGCTAAGAGCCGTCGCTTTATCTCTTTTCTCTTCTTCTTCTTCCCTTGTACTCCTCCGATCCCCAATCTCATCTATCACCACCTGACCTGATCTTTCCCTGCAGATCTCATTGAGAAAGAGAAGAGAAGAGATATTCTTTTTTCCAAAGAAGAAAATCTTGGCCGCGCGCGCGAGATCTTTGCGCAAAAGATGATATATGATGCCTGATCGATCTTCTCGTTTCGGATCTTATTATTGCTCGGCTAATTAGTATTATTAACGCTGCTAGCCAGGGCCTTTGATCCGCGTGGTCGTGGTCGTCGGTGAGGCAGCCGGGCAGGCCGACTCCCATGCATGGAAGCTCGCTTCAGGGTCAAGTCAACTGATTATGTTTTTCATTAATTTGTTGGTAATTAATTTTTTTATATGTACGTACATATATATATAGCTCGGATGGTTTGGTATTTCTTTCTCAGATCTATATATATTGCAAGGGGATCGGAGTGTCGTTAGTTACACGGTATTTATTATAGAGTTTTTGGGATAGAGAGAGATTTCTGACTATTAGCTAGACTAGACTGAAGGCTTTTGTTTCTTTTCTTCTTTGATTTGATCTGATCTGTTCAATGGAGAACATTTTTATGGAAGCCGAGGGCAGGGGATAGCTAGCCGGAGGTGCTCCTAGTCCGTGATATGGAAGGGGCTATATATTCAACTGCAACGCTATTGGTCCTCCAATCCATTTTATCTCGGCCCCTGAAACTCAAGTTGTTTTGATACAATTACAATTAATAATCAACAACTGGGTGGTTGTGGTGAAAACTCTCAGCATTGCAAGACCAATGCCCCTCAGCCTGGACAGCACAAAGGCACATTACACCATGATGATGGCGCCCACTAAATAAATTTGTTACCACCTACCATTTTTCATCGTTGTGTGTTTGGATTACTGAGCGTGAACAAAGGGGTCCTATATATCTGTTGGACTGAGCAGGGAAAGATAGATAGTACTTGAGGGGGATGGTGCTCTATCTTTGTTGGATTGTACTGTCTTACTGATTAGCGATTTCTATTCATGTGTCGGTTAGCTCAATAGCTGTTAAACTTTATATTTGATAACTATTTTATATATATTTTGGGCTGATAATACTAGGACTTCTTTGGGAGGAGGGCTTAGCTATTCCTCAAGTTTAGAGTTAGTTTTGTTAAGATCACAGTAGTTGGATTTTCTTGACGATGGCTCATTGACTACTGTATTTTATTACAACTAGCTTTCTCATGTAACTTGAGTTGGATCATTGATGATATTCTGTTTGTTTGATTTTTGACAATGACAATTACTTCTGTTACAAAATCTTTTTTGTATTTGATTTTTGAGATTCACATTTTACTTTTTGCAATTTAATATTTGATTTGCGTTTTATCTGTGAGATACTTGGATTTTAATATTTGATTTTTAAGATAGATTTCTAGGTAGGTAGGTAGATAAATAGGTATTGAGAGAGATGGAGGAAGAGCGAGAGGGAGGGCGAAGGAGAGGGATTGTTTTGATCATCACCATGTATGTTGTTGTGTGTGAGTTTTATACTGAGTGTAGCGAAGAAACTGACCCTAGGTTAACTTTTGGTCGTTAGTCTTCTTCTGCGTCTACATTTGCTTGTAGCAGTATAATAGAGTCTGCTGCTTCATGGGTTTTGATGTCACTTTTGCTTGCCAAATTCTTTCTACTCATGTTTAGAGTTAGGGTAGAGCAATGACAGCTCTGCTAGTGCAAACAACAATGTGGCCAGTACTGTATCTGTATACAGTACAAGTTTTGCCTAGTAGCTAGTGTGGCTCCTTCTGACTGCATCTAATTTGATTTCTTTCCCCATTTGTAATTTTAACTCTATACTCTGACGGTGCAATATGGCGTCAATTGAAACAATTTTTACTAGTTTTTGGATTGAGCCTGTGACCTGTTTGGATGTTTTCTTTATTTTGAACTGTTTTGCAGATATGGGACACTTCAATCTTTGTGGCTGATTTCTTGTTTCTCAAGATTGTACATCCATGAGACAATTGAATCCCTAGACTAGCACAGGCCATTTCCAGTGTATAGTAGAGCAGTGATAAAAATGCAAGACATGCAGAAATGGAATAACAAAAATTCAAAAAAAAATCAGAAGGCTCTCATAGTGTGGCATGAAACTTTAAAAAATTCTGTACTGTTGATAATTACTGCCACAAATATTCAGAATTTGATCTGTTTTATCGACAGCTGGTGCTGATTGATATTTTGAATTTATTTCCTATAGAAAACAAATGTTATTAGTCATATCTTCAAAGGTATATTTCATACTCTTTAAGTTGCAAACTTGCAATGCTTTTCAATGTTGCCCTATATGTATCATCGTGCCAATTAACTCTAAATGAATTTACAGTTAGGTTAGGATTTCTGTCTGTTGTAACAATATTCCTGATACATACTTTTGTAACACATGGCTAACTATCTAACTAATAATCATACTCATGTCAATTCGTCCTTCATTATTGCTTGCAACATTTGATCTTAATTGGCTCAACCAGGAGTTGGTTCTCTAATTTGCTCTACCGAATTTTGTTAGAATGGCACCAATAATCA

Coding Potentia
Explanation CPC Score
noncoding -1.16603
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0193200.1 3 264089 T C
Osa03LNT0193200.1 3 264929 G A
Osa03LNT0193200.1 3 265158 C A
Osa03LNT0193200.1 3 265583 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
Osa03LNT0193200.1 osa-miR812s Translation 4.5 18.361 1 24
Osa03LNT0193200.1 osa-miR5799 Translation 4.5 18.361 1 24
Osa03LNT0193200.1 osa-miR5829 Cleavage 4.0 17.646 1 24
Osa03LNT0193200.1 osa-miR6255 Cleavage 4.0 18.442 1 22
Osa03LNT0193200.1 osa-miR7693-3p Translation 5.0 12.538 1 22
Osa03LNT0193200.1 osa-miR169d Cleavage 5.0 8.123 1 21
Osa03LNT0193200.1 osa-miR1874-5p Cleavage 5.0 18.094 1 24
Osa03LNT0193200.1 osa-miR812g Cleavage 5.0 18.361 1 24
Osa03LNT0193200.1 osa-miR812h Cleavage 5.0 18.361 1 24
Osa03LNT0193200.1 osa-miR812i Cleavage 5.0 18.361 1 24
Osa03LNT0193200.1 osa-miR812j Cleavage 5.0 18.361 1 24
Osa03LNT0193200.1 osa-miR2864.2 Cleavage 4.5 17.587 1 21
Osa03LNT0193200.1 osa-miR2923 Cleavage 5.0 11.716 1 22
Osa03LNT0193200.1 osa-miR3979-5p Translation 4.5 13.888 1 20
Osa03LNT0193200.1 osa-miR3979-3p Translation 5.0 17.961 1 20
Osa03LNT0193200.1 osa-miR812o-3p Cleavage 4.5 20.143 1 24
Osa03LNT0193200.1 osa-miR5081 Cleavage 4.5 9.638 1 22
Osa03LNT0193200.1 osa-miR2099-3p Translation 5.0 22.894 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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