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

>Osa01LNT0027600.2

CACACACACATAGGTACGTAGCTAATACAGCCCGATATATGGCGTTATATGTAACTATATCTGTACGCCCGAAGAAAGAAGTAACAAATTAAGCTATATACCTCTCAAGATACAATGTAATTAAGGACCTAGCTAGAAGATATATATATATATATGCTGCCTATATATATATACCTCCTATATACGGACATATATAATTCAATTTAGTCCACGACGTTGTTGCTGAAGAGCTTAAACTGTCCAGCGTCGAGCACGAGCTTCCGTATGGAGGCGAATGCGCCGATGGCCCCGACGCCGGAGAAGACGACCATGATGGCCGTGTTGGCGAGGAACATCGGCGACCGCCTGGGCGGCGCGAGCGCGATGTTGTACATGACGACGGGGAGGACGAAGTCGAGCGGGATGAACCCCACGGCGCCGACCACGCCGACGATGTCGCCGAAGAAGGGCAGCATGGCCGCCATGAACGCGCAGAAGGCGAGGTAGAGCGTCCGCAGGAGCAGCCGGGGCACCACGTTCCGCCGCGAGAACTTCCCCCGCGTCGCGTCCGCGGAGCTCTTCTCCATGATCTCGTACGCCACCTGGGAGTAGACGAGGCCGATGGCGAGGAGCTGGAGGAGGACGAAGAGGACGGCGAGGCCGAGCAGCCACGTCGGGGCGAGGGCCGGGCCGGTGTCCGGCATGAGGCTCTTGAGGACGTTGGACTGGACGTGGCTGCCGAACGCCCAGTAGCCGGTGATCGAAGGGATGTAGAAGGCGAAGGCTATGACGGAGTAGCACAGCACAAGCGCCTTCATCATCTTCCCGGCCGCCGGTGGCGCCAACGTGGCCTGGATTTCAGGCAGTATGCCGTTGCCGTAAACAGAAGCCAGGATAGAAATAGAGAGGAAGGCATTGAAGGTCTGTTCTGATTTGGACGAGCTAAGCGTGTAATCCTTCCCCGGAGCATCTTTTGACAGACCTCGAGGCAATCGGCGGCGAGCAGGATGGTGCCGATGCTAACGCCGGTGTTGATGGCCGTCTGCACGATGACCACGAAGTAAAACATCCACCCGGACCCTGCGTGCAGGAGCAGACGAACAAAAGAAAAAGCGATACTATCATGTCGATAATTAATTTTGTGTCTTTGCGTTGGCGAGCTCACCAACGCGCGCCATCCTAATTAATGGGAGCATGGCGGCGAGTCGGCAACAGCACGGCAGCTAGTGTGACTGTGTCGCTGGCTGCTCCACCGCCGCCCGTGCACAAAGGCGCGCGCGCGGCGCCGCGCTGCGTCCAAACGAGCATTGATGCGGGTAGCTAAAGCTGTCTGCTTCGCTTGTGGGCATTGCACCGAACGCACATGGGGCAATACACGGGAATGTCATGTGCGTGTGGTGATGGGGTGCAGTGGAAAGGAATGGATCAGGGGAGTTAATAGTAATACCGAGGACGTCGGCGGCGAGCTCGCGGAAGCGGATGTGGCGGCGGCCGCGGGCCTCGCAGTGCTCGAGGACGCGGGACATGAGGGAGTACTCGTAGAAGGTGACGGCGCCGACGGCGGTGAGCACGGTGAGTCCCAGCGCCCACCCCATCCCGCGCAGCGCGTACGGCAGCGTCAGCACCGTCGGCCCCACGATCGCCGTCGTCAGGTGGAACCCGGCGTGCCACCACGTCCCTGCAAGGTCGCCCCGCGACG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.429724
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0027600.2 1 24755509 C T
Osa01LNT0027600.2 1 24755647 A T
Osa01LNT0027600.2 1 24756195 A G
Osa01LNT0027600.2 1 24756265 A C
Osa01LNT0027600.2 1 24756546 C A
Osa01LNT0027600.2 1 24756818 A G
Osa01LNT0027600.2 1 24756957 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa01LNT0027600.2 DTM_#DNAt_MULE_japo_Os0218 Chr1 - 24754647 24755061 414
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0027600.2 osa-miR7693-5p Cleavage 5.0 19.87 1 24
Osa01LNT0027600.2 osa-miR812o-5p Cleavage 4.0 23.176 1 21
Osa01LNT0027600.2 osa-miR5494 Cleavage 5.0 15.744 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0027600.2 1 nan Morphological trait Panicle/flower CDO920 RZ776
Osa01LNT0027600.2 1 nan Resistance or Tolerance Drought tolerance BCD134 RZ776
Osa01LNT0027600.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0027600.2 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0027600.2 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0027600.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0027600.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0027600.2 1 nan Morphological trait Root RM23 RM306
Osa01LNT0027600.2 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0027600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0027600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0027600.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
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