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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcctcaccgatctcacattgatgatttatgaacagaggattgagcaatttttaatcacagcagtgtacaaagtatattaactgtcagttttacatgaatctgcagtctccaatgcgaaattgctgcagGGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAATTCAGCCAAGTATAATCCATTAGG

Basic information

species Oryza sativa
transcript LOC_Os02g45700.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g45700.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G071325_T01 (Zea mays), 3'ss of exon 1
gtaatcctcaccgatctcacattgatgatttatgaacagaggattgagcaatttttaatcacagcagtgtacaaagtatattaactgtcagttttacatgaatctgcagtctccaatgcgaaattgctgcagGGTGCTGTCGTCTCCCAA---AGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAATTCAGCCAAGTATAATCCATTAGG
||| |||||  ||| ||| |  ||    | | |  |  |   ||||  ||||| |     || | | | |  |  || |  |        |||   | ||     ||||||||| |  || |||||||||||||||||||||||||||     |||  |||| || |||||||||||||||||||||||  |||||||  |||| ||||                          
gtagtcctcgtcgagctctc--tgcctctctgttcat-gttcattggacaattctactctactgtattct--agtgtttgatgctgactggttgatcctg---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|86505051|gb|CI147684.1|CI147684
EST:     TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGG                         GGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGA
genomic: TCGACACCGTGGTCGTGCTCAAGAAACCTGACCCCGGCTTATGGGACCGGgtaatcctca ... attgctgcagGGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattaactgtcagttttacatgaatctgcagtctccaatgcgaaattgctgcagGGTGCTGTCGTCTCCCAAAGGACAGGAAGGAAACAAGACGATGACCATAGACGTGGGTGTATGCAAGGATTGGGAATTCAGCCAAGTATAATCCATTAGG
 tattaac  putative branch site (score: 1)
              ttttacat  TA-rich tract