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

>Osa11LNT0103100.2

CGAGTGAAACCCCCATAGTCCATACTATCCATGAAAGTAAATGCAAAGCACAACATAACCAGATCTGTACAAACGAAGGGCAATGACAAGATGCCTAATGAATCAGTGAAGAACAAATAGTTTGATTTCTGCATCCTAAGATGGTGTCCTAGAAATCCATAATAGGCACTCCTTCCTAAGAGGAGAATCCGCAAATATTGCTTTGACAAAATTTTGTACCTCAGACGATGTGAAACCACAATTAGTTAACTCCCCACTTTCCCAAGCGGCCGTGATGGATTTCAACGACATATCAAGCAGCTCCGCTAGCTTCCGGAACTTCTTCAAAGGTCGTATAATCTCATCCAACTCGATCCAAGTTTGATGGTCCAAGAACTCATTCTCAACCAGGGACAGAAATAGTGATGAGAGGTTTTCAAGAGCCAAATGGATAAGACCTTGCAGCTGTAATGTCTCCTCTGCTGCCATGTCATCTATTAGGAGCATATCTTTTGTAATTCTAGAAAAGACAGATCCAAGGATGTAACACATACTTCTCTTGTAAATTGATCTTGGCAGTATCGATTCCCACATAATGTGTATTTTTTCTAAAATGAACACAACCTGCTCAATACTGAATTTTGCTGATTCATAATGCTGAGGTTGGTGTGTATTCTGAAAACCATCAGCGCCATCTATAGCCTCTATTAAGTTTGCAGTAACAAGCTGGATTTGCCTTGTAAGTACACCATCTGCCATCTGAGAGAAGGTTGGGGCTAAATCCACAAAAACAACTAGTTTCTGTAGGTCACCAGGAAAATCTGCACGGTACTCAAATGCAAGACCAAGAATTTCTTGGGACAAATGGTAGAAGTCGTTGTGAATAATGGCAGCTACTTGATTGATACTATCGAGTTGCTTCTCTAGCTGAACTGGCACAATAGCCTTGTACAAGAGTAAGGCGTCCCTAGCAGCATAGCATAACTCCTTTGCAACTCTTGCGGATGACAAACAAGCATCCTGCACTTCAGGGCTCCATGAACAAGTTTCATTAATTGAAGTGCTGATTTAGATATAAAACACTTTTCTGGCAGGAAAAGTAAATCAACAATGGAATCTTCTCGATCATGTGATGCAAGAGGATTGTCGTAATCATAATGTACAAGAAGATGTCTTGCTTTTACCAAGATCTCATTTCTCTTCCTTACAGCGAAATGGACTTCAACATCATCAACAAATTGGGTCAACTTGCCATCCCTTTTTTCATGTGAAATGAACATCATATTCCTAAGAGTATTCTCAAATTCAGTTGTACTTCTCACAACATCTTGGAACTCAATTAGCTTGGATGCCTCATGAGGAACAGCCTTGGAGATAAAATGTTTGATAACCAGGTCAGATATTCTTGACCAAGTTAACTTTGAAAAAGACTGCATCCATGTGATATTTTCTCCACAAATGGTCTCACATACAAACTTGATTATATCTATTATTCTTGAGTAAAGAGCTGAACCATCTTTGTAGCCCTGTAGTTCCTCTGTTGGGGTTACACACAAGATTGATATAGGGTATTGAGGACCACTTTTCTCAAGTTCTTCCACAGAAACTGCCACAGATATGTTGCTGATAGCTGGAACTAGGACATGCTTGATCATCAAGTCTGCTAGCTTTGTCATTCCATAGTCTACAGCATCAATTATCTCCAAGGCCTGCAGAGCCACGCGAAGCTCCACACCAGGTGTTCCACCGGACTTGCCTACAGGCGCAGTCCTCACCATCACCTTCCCTCCCTCCGGCGCAAACTCCACACATTCCTCCAAGTTCTTCGCAAGCATCACTTGCAACTCGTCGACTAGCTGCTCCCAGTCGTTCCGGAGAAGCCCGAACACGACGGGTTCGTCCTGACTAGATCCAGATCCCTCGGGATCCACCAGGAGAGGCTTGAGCTCGGCAGCGGCGGCGGCGGCGGCGAGGGGGTCGGGTGAGGCGCGAGCGGCACGAAGTCGAGCGGCGAGGTCGGCTACCGAGGAGGCGGCGGCGAGGTGCTCCTGCCGCTCGCGGAGCTCGCGGCGGGCGGCGAGGAGGCGGTCGGAGAGCTCCCTGAGGTCGGAGAGGCCCGGGGACGAGGAGAGCGGGGCGAGCGCCGACGCGAGGGAGGACTCGAGGGAGGAGGACGAGGCCGAGGAGTCGGCGGCGCGGAGGAGCGCGGCGGCGAGCGGGGCGCGGTGGGAGGAGGCGAAGGAGAGCGCGGAGGCGTGGAGGCGGTCGGAGCGGATGCGGAGGCGGTCGATGAGGAGGCGGAGGTCCGGGGCCGAGAGCGGGGTGGAGGGGTCGGCGTCGGCGGTGGTGGAGAGGAGGAGCTCGCGCACGTCGTCGGCCATCGCCGCCGGCGACGAGGCGGTGGTGGGGGTGGGGGCGGCGCTGCGGGATCCGGACGGGGAGGAGTTAAGCCGTTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.910464
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0103100.2 11 20109706 A G
Osa11LNT0103100.2 11 20110157 T C
Osa11LNT0103100.2 11 20110400 G A
Osa11LNT0103100.2 11 20111477 T C
Osa11LNT0103100.2 11 20111671 C T
Osa11LNT0103100.2 11 20111877 T C
Osa11LNT0103100.2 11 20112173 T C
Osa11LNT0103100.2 11 20113215 T C
Osa11LNT0103100.2 11 20114211 G T
Osa11LNT0103100.2 11 20112834 G A
Osa11LNT0103100.2 11 20114986 T C
Osa11LNT0103100.2 11 20114827 T G
Osa11LNT0103100.2 11 20115094 A C
Osa11LNT0103100.2 11 20114558 A G
Osa11LNT0103100.2 11 20110722 T 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
Osa11LNT0103100.2 osa-miR6253 Cleavage 4.5 16.455 1 22
Osa11LNT0103100.2 osa-miR6253 Translation 4.5 9.54 1 22
Osa11LNT0103100.2 osa-miR395b Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395d Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395e Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395g Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395h Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395i Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395j Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395k Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395l Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395s Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395c Cleavage 4.0 11.944 1 21
Osa11LNT0103100.2 osa-miR395a Cleavage 4.0 11.944 1 21
Osa11LNT0103100.2 osa-miR395u Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR414 Translation 4.5 24.656 1 21
Osa11LNT0103100.2 osa-miR395m Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395n Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395o Cleavage 5.0 11.944 1 21
Osa11LNT0103100.2 osa-miR395p Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395q Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395v Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR395r Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR1431 Cleavage 5.0 7.873 1 21
Osa11LNT0103100.2 osa-miR1850.2 Translation 4.5 20.776 1 21
Osa11LNT0103100.2 osa-miR1862d Cleavage 5.0 11.277 1 24
Osa11LNT0103100.2 osa-miR395y Cleavage 4.5 11.944 1 21
Osa11LNT0103100.2 osa-miR5492 Cleavage 5.0 13.317 1 21
Osa11LNT0103100.2 osa-miR5505 Cleavage 4.0 12.475 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0103100.2 11 qPH-11-1 Morphological trait Dwarf RM229 RM209
Osa11LNT0103100.2 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0103100.2 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103100.2 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103100.2 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103100.2 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0103100.2 11 qBFR11 Resistance or Tolerance Blast resistance RM209 RM5349
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