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

>Osa03LNT0224600.1

ACCTCAAATTAAATCTCTCCATATTATAGTGAATCACATATTTTAGGGAACAAAGGTGCAAAGCAATCGCAGAATTTCAGTATAATAATATTCAACATAAGATATTATCCTCCAAAGATCAGATCTTATAGGTGATTTATTTCATCGTCTTCAGAAAACACCTAATACATACAAAGCCATACGTGAACTAAACTGTGAAGAATCACTCAGCAGTAAGAATGGAATTTAAGCAAGCATATTGTGGATGGTTAATTAGTCATATAATATACCTCTTCTAATCTGTGAGGACCTCTCTAAACACAATATTTTTTGTGTATGTTGCAGCCTGTTTAGACAATTCCTTTCCTTTCTTCTCATTGTCCTTCACGCCAGTACGCTTAGACTTTTTATTTTGTTTCTTGTCTTCGACCGGCATCGATAGTATTTTTATGTTTGTTCTAGAGGTTGCTCTGGACAGCACGACGTATAGTTGACCATGAGAGAAGACAGGCTCTGGTAAGTAGACGCCTGCATTTGGAATGGTTTGACCCTGCGCCTTATTGATGGTCAATGCAAAGCTCAATCTAACTGGAAATTGCTTCCTCTTGAAGCGAAACGGGAACATCTCATCATCAGAAGGACATAGAGGTATCCGAGGAAGGAAAACTCTCTTTCCAGCATGCTGCCCTACAACAATCTCCGCGTCAATAGCATTTTTTCCAAACTGACGAACCACCAGCCTTGTCCCATTGCAAAGTCCGTTGGCTGGGTCAATGTTCCTCAAAAGCATGATGGGGCAATTTATCTTCAGCTTAAGCACATGCGGAGGTAGCCCATTTGGAGTTAGAGAGTTCAAGAATTCCGGCGGGTAATAGTTATGAGGGTCATCATCTGCTCGGTCAAAACTATGATATGTCATCACATCCCCTCTAAACCGCTCAATCATCTTCATGTTTATTCGATCGACGAACTCATTCCGAGTGGACAATATGGCCCTACATGTGATGTAGTTTGGGTCCGTCAGGTTATCGTTTAGGTTGGGGAACACAGTATCGATGAGCCTTTCGAGGTCCGTTTCATTCCCTTTGCACGACCCGCAAATATCCGAAGGAAGGCCTATGAGTCCTTCCTTGTTCACCTCCTCGGTTCCATTCCCAACTCGAAGGAGGTAGTTCGCAAACCACGCGCCCTCATATTGCGAACAAGCTTCAATTGAACCATACAATCCCAAAGATAGGACCTGCGTAGAGTGGCATCTGTTATCTGAGACCTAGTGCCCTTCCTGATGACCGGGAGCACCTGCCTAAAATCCCCTCCAAACACAATCGTCTTCCCTCCAAACGGAGAACGCGGACAACCCATTATATCTCTCATGCTCATATCGAGGGCCTCAACCGCTTGCCTCTTTGTCATGGAGGCCTCATCCCATATTATAAGCGACGCCATCTGGAGAAGCTTCGCCGTCCCACTTTGTTTGGTGAAGCTGCAACAAGACCCTTCCTCAATGTTGAGGGGGATCTTGAACCACGAATGTGCGGTCCGGCCTCCAGGCATTATAGAAGCTGCAACACCCGACGTCGCGGTTGCCACCGCTATATCTCCTTTGCTGCGAACCGTAGCTAGCAACGCGCTATACAGGAAAGTCTTCCCCGTGCCTCCTGGGCCATCTACGAAGAAAACACCCCCCTGAGCACTGCCAACTGCATTCATGATTTTGTTGAATGCAGACCTTTGCTCATCATTGAGCTGGTCTGAGAGGTTCATATCGTCCGTCTCCACACCAATGGATGACTCCTCAATAATCTCTCTGGGATCTCCTCTGGTACTATCATGTGATTCATCAATTTCAGGGAACGAAAATGATGTGATTTCCTTTCCCATTGATTGTAGCATGCCTCGGATATCTATCAGCACCATCTGTTGGACAACATGAGGGCATGCGTTGTTACGCCTGTAGTCATCAGACATGGCATCTAGATGCTTGTCCCAAAGACCACGGACATCGCTAGGTTCGCAATACACCAATATGGTAGCGAATAACCTGCGTAG

Coding Potentia
Explanation CPC Score
noncoding -1.23693
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0224600.1 3 23582545 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
Osa03LNT0224600.1 osa-miR5534b Translation 5.0 12.303 1 21
Osa03LNT0224600.1 osa-miR5793 Cleavage 5.0 12.303 1 21
Osa03LNT0224600.1 osa-miR169d Cleavage 5.0 18.216 1 21
Osa03LNT0224600.1 osa-miR818a Cleavage 5.0 21.357 1 22
Osa03LNT0224600.1 osa-miR818b Cleavage 5.0 21.357 1 22
Osa03LNT0224600.1 osa-miR818c Cleavage 5.0 21.357 1 22
Osa03LNT0224600.1 osa-miR818d Cleavage 5.0 21.357 1 22
Osa03LNT0224600.1 osa-miR818e Cleavage 5.0 21.357 1 22
Osa03LNT0224600.1 osa-miR1425-5p Translation 5.0 13.996 1 21
Osa03LNT0224600.1 osa-miR1438 Translation 4.0 14.044 1 22
Osa03LNT0224600.1 osa-miR1847.2 Cleavage 5.0 17.226 1 24
Osa03LNT0224600.1 osa-miR1874-5p Translation 5.0 13.75 1 24
Osa03LNT0224600.1 osa-miR5145 Cleavage 3.5 19.712 1 24
Osa03LNT0224600.1 osa-miR5524 Cleavage 4.0 7.4 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0224600.1 3 gw3.1 Morphological trait Seed RZ672 RZ474
Osa03LNT0224600.1 3 nan Resistance or Tolerance Insect resistance G332 R19
Osa03LNT0224600.1 3 qGL-3 Morphological trait Seed R19 C1677
Osa03LNT0224600.1 3 qLWR-3 Morphological trait Seed R19 C1677
Osa03LNT0224600.1 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0224600.1 3 qSV-3-1 Morphological trait Shoot/Seedling RM156 RM168
Osa03LNT0224600.1 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0224600.1 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0224600.1 3 An5(t) Morphological trait Panicle/flower C1677 R19
Osa03LNT0224600.1 3 nan Morphological trait Shoot/Seedling RZ284 RZ403
Osa03LNT0224600.1 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0224600.1 3 nan Morphological trait Panicle/flower RZ403 RZ452
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