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

>Osa02LNT0167700.1

ACAAAACTTTTCAATTTTTGCGGCTAGCATTCGTCACAACGAAGGCGCACAATTACACAAAACATCAGAAGAAGAAACTCAACTCATGGTGCTATGGTGAAGGGATCTTTTCAGTCAGGAAAGCTTGGCTAGGTGTTACAGAGATGTTCAGACATTGACTGCAGAAACAATCAACATCATAACAAATGGTGGTAGTGAAGGCTTCCACAAAAAAATAGAGGAACTAAAAATGATAGAAACCTTCCACGTTGATTTGAATCTCATGAAAATACATCGTGCTGTATAATCTAGCATGTACACCATCAAGAGAACAACGGAATTTTGCCAACCATGCCCACAAACATTGCGCTATCTAACACTGCTGACAGGCCTATAAGTTACATGAAATTTAACTCTTGCTGTGTTGTTTTTTCTTTATTTTGTGTTTTGGCTTGACAGCGTCTTTTAGACTCTTTGGCGATATAGCTTCCTGCGTCTCATCTGACCCTCCAGCAGTCAACCTTGATTCACTTTGCGGCTCAGGATTACATTCAGATAACATTGGTTCAACATCCTCCTGCTTGTTGTCCTCAACCACAGATGGTGGTTCAGGCAATTGAGAAATTCTGAGGGAGCTTAATGAAACTCCTTTAGAGTATGGATCCCAATTTGATGGACCACCAATGAATTTGGATGTTTGTTTTTGTTTAGCAGTTCTGTCCACAGTCAAGGATGAATTCCGTTTTATATTTCGATGATCCTCATCATCACCTTTGTTTATCTGCTGACCATCGCTGGATGGTTTTGTACTTTGAGTTTCCAATGCACCATCAGAACTTTCCTTCATAGCCACATCAGGAGCATTATCCTTTTTCAGTGCTGAGGCTGGCAAACGCTTTACTTTCTGCAGTGCCTTCGCAGAGGTGTATGAGTTAACCTCATTCTTTATTTTGCTTGTTATATCAGCAGCTTTAACTGAAGCAATTCTTAAACACTGCATGATAACACTTGACATGACACCCTCTCCACCAGCTTTCTGGATGGAACATACATCACCGTTTGAGTTAATTGTAGCAGTCATTCGTCCTCCCATAACAGCTTCTTCCTTATATGTCGGATCAATAACCATGATGTTGCCCTCGCCAAAATATGCAAATGTCACAGCAATAGGGAGATGATGAATTGTCAAAGGGAGTGGGTCCCTTACCTCAGGGTCATGTACTGTAACCTGTTGACCATCTTCCCCTCCGACCGTACATTCAGGCCTCCGGAAAGTAGACAGAGCTGCCAGCGCGGCAATGTTAGCTGCATCAATGAGATTCCCTCCATTATCCAAGATATGAAGGTCGACGCGCACCGACCAAACATGCTTCCCAGCAACAACACACAGGGACTCCATATCGACGGCTCGGCTCTCCCTTAGGCCGCGATCGACGACGCGACCGAGCTCGATCGCCGACTCCCCTGGCCGCCCCGGCTCGAAGGCGGGGTCGGCCATGGGCGAGAACTCGGTGAATATCGCGAGCGTCCCCTCGTTGGGCCTGTCCTTGTACGGCTGCACCAGCTGCGCCGTGGCGTAGCCCATGACGCGCGTGTCCCCGAGCTGCACCTCCGCCGAGCCGTCCTCCCTGCCGAAGAGGATCTTGAGGCGGCGGAAGTCGAAGGGGCGGCGGCCGTCGACGCGGAGGTCGGACTGGAGGGCGCGCTCGATGAACTCGCGCTCGTTCACCGTGGGGTGCCACCGCTGGTGGTGGTCCATGGCGTTCGCCGTTCGCGTCGCTCGCCGGCGGCGGGGGTGGTGGCTAGGGTTTTAGCGGCCGCGCGGCGGGGGAAA

Coding Potentia
Explanation CPC Score
noncoding -1.0452
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0167700.1 2 20728591 A T
Osa02LNT0167700.1 2 20730512 T C
Osa02LNT0167700.1 2 20730825 A C
Osa02LNT0167700.1 2 20730864 T C
Osa02LNT0167700.1 2 20731580 T 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
Osa02LNT0167700.1 osa-miR5814 Translation 4.0 21.345 1 24
Osa02LNT0167700.1 osa-miR172a Translation 4.0 16.778 1 21
Osa02LNT0167700.1 osa-miR172b Translation 3.0 16.778 1 21
Osa02LNT0167700.1 osa-miR172d-3p Translation 4.0 16.778 1 21
Osa02LNT0167700.1 osa-miR2104 Cleavage 4.5 23.771 1 22
Osa02LNT0167700.1 osa-miR5499 Translation 4.0 14.839 1 21
Osa02LNT0167700.1 osa-miR1860-5p Cleavage 4.5 19.743 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0167700.1 2 qRTH-2 Morphological trait Root RM262 RM341
Osa02LNT0167700.1 2 qSTA-2 Morphological trait Root RM262 RM341
Osa02LNT0167700.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0167700.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0167700.1 2 nan Morphological trait Root RG171 RG157
Osa02LNT0167700.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0167700.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0167700.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0167700.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0167700.1 2 2-3SY Physiological trait Source activity RG171 RG157
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