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

>Osa04LNT0283600.2

TTAGCATCGAGTAACAGATGTTTCCATTAAACAACTTTAGAATACACACATGCAGGGTGTTGAGGCCGATGATCAAGCAATGACCATGCGGCAGATTAATGCAGACCGTAACCACAATCTCAGGTACTTAAATAACGTCATACCCGGTAGGCAGGTTTACAAAACGTTTTCGTAAACGTTTTTAGCCGAAATTTCGCTCAAGAAACATCATGTCTGCTTAGTTTGACATATTCAAACAAGATAATGACGATATCTCAATCACCGCTGGCACAGCCTCTGCATCCACAGTGAACACATTCTATAACCTTCTCCTCTCTGAGATGCTTGGGGACCCGGCAGACACATGTAGTTGCAAAGTTGTGGTCTCGTGTCTGTATGCATCGAAGACAGCAAAGGCGCTCATAGCCTGGCTTTTTCCACTTTGCAATCAGATTACGGTCTGCATAACCCTGGTCCAGGCAAAACTCATACAACTCTTTTGATATCTCCTTCCTTCTGTAATAAAGATCATATATGTAGCGACTTCTTTGATGGGAAATACGGAAAATTGGCCAGAGGGCTTCGCACTTTCTCTTCCCATCATGCGTGTCATTTTCAGCTTCCCTCATTTTGGCATCCAACTCACGGATAGTTGGTTCAATAAGCTCCCATCCTCCAGGATATTTGACACGGCTTGTCTTTATTTTAGGCATGTTCTCTCAATGAACGTCGAGGGGCTAAAGCTTGCAAAGAAACCCTCTTGGCTTGGGCGGCCTTGCAGTCGCCGGATGGAAGCTGTGGCGCGCGGGGGAGCGGCGATCCAGAGGGGGCGCGCGTCGTCCGCGCCGCTGGTCTGCGCTGCGCTGCGCTCCGCTCCGGTCGAGCAAAGACGGCCGGGTTTGGAGTTTGGACCGGAGCTATCAGCTATATGTCGTGATTCTTTTTCCCCTCCTTTTTGTTTTTTGAGAGGAGCTATGCCGGTTTCACGGTTTTCTCCTCTGGTAGGAGTAGTATTTGCTACATGGGCCTCAAGAATCAAAACGGGACACCAACTGTGCGGCGAGCGACGATGCGGTGGAAGAAGGAGGACGCCGGGCGCCACCTCTGCTCGCAGGATGGGGATCGGCGCAAGCGGCGGGCGAGGAGACGAAATTCGAGGCCGAGGCCGGATGGGATGGATTAGGATGCTCACCGGTGAGCGAATGAGGCGGGAGCAGGAGGACGCCGGCGCCACCTCTGCTAGCAGGATGGAGATCGGCGCCAGCGGCAGGCGAGGAGACGGGAGTCGAGGGCGGCGGGCGAGGAGACGGGACGGATTGGGG

Coding Potentia
Explanation CPC Score
noncoding -1.23635
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0283600.2 4 32868973 C T
Osa04LNT0283600.2 4 32868257 A C
Osa04LNT0283600.2 4 32868495 C T
Osa04LNT0283600.2 4 32869746 A G
Osa04LNT0283600.2 4 32869978 G T
Osa04LNT0283600.2 4 32870536 A G
Osa04LNT0283600.2 4 32870929 A G
Osa04LNT0283600.2 4 32871243 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
Osa04LNT0283600.2 osa-miR166k-3p Cleavage 4.5 24.505 1 21
Osa04LNT0283600.2 osa-miR166l-3p Cleavage 4.5 24.505 1 21
Osa04LNT0283600.2 osa-miR2118f Translation 4.0 18.755 1 22
Osa04LNT0283600.2 osa-miR2118g Translation 3.5 18.755 1 22
Osa04LNT0283600.2 osa-miR2118i Translation 4.0 18.755 1 22
Osa04LNT0283600.2 osa-miR2118j Translation 4.0 18.755 1 22
Osa04LNT0283600.2 osa-miR2118l Translation 3.5 18.755 1 22
Osa04LNT0283600.2 osa-miR2118m Translation 4.0 18.755 1 22
Osa04LNT0283600.2 osa-miR2871a-5p Cleavage 5.0 20.948 1 24
Osa04LNT0283600.2 osa-miR2919 Cleavage 3.0 20.834 1 19
Osa04LNT0283600.2 osa-miR5145 Translation 2.5 19.07 1 24
Osa04LNT0283600.2 osa-miR5521 Cleavage 4.0 16.484 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0283600.2 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0283600.2 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0283600.2 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0283600.2 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0283600.2 4 nan Physiological trait Eating quality RZ590 RG214
Osa04LNT0283600.2 4 nan Physiological trait Eating quality RZ590 RG214
Osa04LNT0283600.2 4 nan Morphological trait Root RG214 C1016
Osa04LNT0283600.2 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0283600.2 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0283600.2 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0283600.2 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0283600.2 4 qSN-4b Resistance or Tolerance Drought tolerance RM255 RM349
Osa04LNT0283600.2 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0283600.2 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0283600.2 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0283600.2 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0283600.2 4 nan Morphological trait Root RM3276 RM3335
Osa04LNT0283600.2 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0283600.2 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0283600.2 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0283600.2 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0283600.2 4 gpp4 Morphological trait Seed RZ569 RZ565
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