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

>Osa03LNT0223700.2

TATATATATATATATATATATAGTATTTATTATCAACTAATGGATATCCAACAAACAAGGAGGGGTGTACATATTTCTCCGAGTACAAAATGGCGGTCTGTATTGTAAATACATAATCAAAGTTTATATCATGTTTTGACACTGTAATAGCCATCAATGCTTCTTCGAGCTCAAAACTCGCTCGCTAATAGTCCTAATAAACTTGTTAATTTCTCTAAAGTGTAAAACTATATTGTGTCCAGGAATTTCCATAGATGTACTTGTACCAAGAGATAATCTTTGGATCATTCCTATTATATGTCCCGTCGATGACAATACAACATCAGATCTACCTACTGTATGCAAGTTTACCACCTGAAAGTGTTCCGTATCATCAACGATCCTTCTACAGTGACATACCTCTCCAATTGCATAAGAGTAGCTGCCTGAAAGTTCATGAAGAATACTGTATATTTCTTGACCATTAGTAATCTGCGTAGAATCATCTGCTACGTTTGCATAATCATATCCTTCTTTCTTGTTATCAGTTGGTGTAAGAAGCACGAATAACTTGCTACACTTTATCTTCAACCGCTGAAAAGTACCGTCGCTGACTTCTCGACCCAAAATGATACTGTTAGTATTTGGAACACTACTTGATGTGGTTAGAATATGGCCCACATTATTTATAAAAACTCCCGCGGCAAAATTTAAATGTTTTCCACTTCCAATCTTAAGTAGCCAAATACAAGACTTTTCAGAGAATCATAAAATTGTGCTTGTTCTTCTGTTGTTAGATCACGCCCTTTTCCAATATGTGTAAAGGCTTTAAGTGGCATTTTAATATCTCAATTCCTCAGGCCTATAGAATCAAATCGAGGACTCCCTGTCCCTGGAGGACCGGCTTGCGCGGGCGCCCGTCATCTCGGTGGCCATGCCGCATGGAGCTGAGACGAGGAGGCTGCCTACCGCCGCAGACCGGACCGGCCTCACGAAGTGGCTCCGCCAAGAACCGTCCGAATCGCCTCCCGTCGACCTCCTCCTCTCCCTCGCCTGCCGATGCCGCCGCCGTGGTGCCGCGGGTAGGGTTCCGCTAGAACTAGTGCCGAGGGCGACGCGGCGATCTCGATGCGGCCGGCCCACTGGCCCAGATTATTTTG

Coding Potentia
Explanation CPC Score
noncoding -1.26903
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0223700.2 3 22874950 C G
Osa03LNT0223700.2 3 22875117 A T
Osa03LNT0223700.2 3 22875496 A T
Osa03LNT0223700.2 3 22875792 T C
Osa03LNT0223700.2 3 22875832 T G
Osa03LNT0223700.2 3 22876826 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0223700.2 osa-miR5541 Cleavage 5.0 17.671 1 21
Osa03LNT0223700.2 osa-miR5512b Cleavage 3.5 11.729 1 21
Osa03LNT0223700.2 osa-miR2105 Translation 4.0 17.21 1 20
Osa03LNT0223700.2 osa-miR5512a Cleavage 3.5 11.729 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0223700.2 3 nan Morphological trait Shoot/Seedling RZ284 RZ403
Osa03LNT0223700.2 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0223700.2 3 nan Morphological trait Panicle/flower RZ403 RZ452
Osa03LNT0223700.2 3 An5(t) Morphological trait Panicle/flower C1677 R19
Osa03LNT0223700.2 3 gw3.1 Morphological trait Seed RZ672 RZ474
Osa03LNT0223700.2 3 nan Resistance or Tolerance Insect resistance G332 R19
Osa03LNT0223700.2 3 qGL-3 Morphological trait Seed R19 C1677
Osa03LNT0223700.2 3 qLWR-3 Morphological trait Seed R19 C1677
Osa03LNT0223700.2 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0223700.2 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0223700.2 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0223700.2 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0223700.2 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0223700.2 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
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