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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcctcaccgatctcacattgatgatttatgaacagaggattgagcaatttttaatcacagcagtgtacaaagtatattaactgtcagttttacatgaatctgcagTCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAAT

Basic information

species Oryza sativa
transcript LOC_Os02g45700.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g45700.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G071325_T01 (Zea mays), 3'ss of exon 1
gtaatcctcaccgatctcacattgatgatttatgaacagaggattgagcaatttttaatcacagcagtgtacaaagtatattaactgtcagttttacatgaatctgcagTCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAA---AGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAAT
||| |||||  ||| ||| |  ||    | | |  |  |   ||||  ||||| |     || | | | ||    || |  |        |||   | ||     ||||||||| |  || |||||||||||||||||||||||||||     |||  |||| || |||||||||||||||||||||||  |||||||  |||| ||||   
gtagtcctcgtcgagctctc--tgcctctctgttcat-gttcattggacaattctactctactgtattcta--gtgtttgatgctgactggttgatcctg---tcgcagTCTCCGAGACGGAATTGCTGCAGGGTGCTGTCGTCTCCCGGGACAGGGAAGGACGGCAACAAGACGATGACCATAGACGTTAGTGTATGTGAGGACTGGG---
















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|86503980|gb|CI146613.1|CI146613
EST:     TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGG                         TCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAA
genomic: TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGGgtaatcctca ... gaatctgcagTCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAA
EST: gi|89162100|gb|CI103636.1|CI103636
EST:     TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGG                         TCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAA
genomic: TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGGgtaatcctca ... gaatctgcagTCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatcacagcagtgtacaaagtatattaactgtcagttttacatgaatctgcagTCTCCAATGCGAAATTGCTGCAGGGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAAT
                        tattaac  putative branch site (score: 1)
               tacaaagtatattaa  TA-rich tract