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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacaaaattgagtagttagcatccaattttatccacattgtttgggcattgtttatctttatctggtatttttggtcacagtatcataatttgtgtatgccatcttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G047894_T05 (Zea mays), 3'ss of exon 3
gtatgacaaaattgagtagttagcatccaattttatccacattgtttgg----------gcattgtttatctttatctggtatttttggtcacagtatcataatttgtgtatgccatcttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA--------
||| |  || ||| |  |   ||  | |||||| |||||||||| ||||          ||| || ||   ||| ||||||  |  ||||| | | ||   | |||     | | || |  ||||||| ||||||||||||||| |||||||||||||||| ||| ||||||||||||  |||  | ||||| || |||||||||||||||||||| ||        
gtaagtaaacatt-atca--cagtgtgcaatttaatccacattgcttggtcacaactaagcactgattgcatttctctggtgct--tggtcgctgcatttaagttttctacttctatgtgcttgcagAGAAGGGATGAGGCATACTTCATGTCTCTCCTGAGAATTGCAGAAACTACTTGTGGATTGTATTATTCATATGACAGGGATTTGACACTAAAGTAAGTGC

upper sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G047894_T04 (Zea mays), 3'ss of exon 3
gtatgacaaaattgagtagttagcatccaattttatccacattgtttgg----------gcattgtttatctttatctggtatttttggtcacagtatcataatttgtgtatgccatcttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA
||| |  || ||| |  |   ||  | |||||| |||||||||| ||||          ||| || ||   ||| ||||||  |  ||||| | | ||   | |||     | | || |  ||||||| ||||||||||||||| |||||||||||||||| ||| ||||||||||||  |||  | ||||| || |||||||||||||||||||| ||
gtaagtaaacatt-atca--cagtgtgcaatttaatccacattgcttggtcacaactaagcactgattgcatttctctggtgct--tggtcgctgcatttaagttttctacttctatgtgcttgcagAGAAGGGATGAGGCATACTTCATGTCTCTCCTGAGAATTGCAGAAACTACTTGTGGATTGTATTATTCATATGACAGGGATTTGACACTAAA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|33675005|gb|CF303244.1|CF303244
EST:     TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAA                         AAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
genomic: TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAAgtatgacaaa ... cttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
EST: gi|88298501|gb|CI563496.1|CI563496
EST:     TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAA                         AAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
genomic: TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAAgtatgacaaa ... cttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
EST: gi|117222519|gb|CT845898.1|CT845898
EST:     TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAA                         AAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
genomic: TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAAgtatgacaaa ... cttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
EST: gi|29624693|gb|CB629704.1|CB629704
EST:     TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAA                         AAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATTGCAGAAACTACT
genomic: TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAAgtatgacaaa ... cttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACT
EST: gi|86883987|gb|CI309935.1|CI309935
EST:     TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAA                         AAAAGGGATGAGGCATAT
genomic: TGAAATTCTTATGCTGCAACGAGGCTATAAAGCATTTAACTGCACAAGAAgtatgacaaa ... cttattgcagAAAAGGGATGAGGCATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctggtatttttggtcacagtatcataatttgtgtatgccatcttattgcagAAAAGGGATGAGGCATATTTCATGTCTCTCCTGAAAATCGCAGAAACTACTCATGGGCTTTATTACTCTTATGACAGGGATTTGACACTGAA
                                         ccatctt  CT-rich tract
                       tatcataattt  TA-rich tract