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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGGCGTGCGAGGACTGATGCTGGACATGTACGACTTCCGCAACGACATCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTCgtaaggcacacatgattacgtgtacaatcgcctctgaattcccgatgaatctgacgaacacgagagcttttgatctgatcaatgtgttttaattcgagcag

Basic information

species Oryza sativa
transcript LOC_Os04g35100.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g35100.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G078650_T02 (Zea mays), 5'ss of exon 3
AACGGCGTGCGAGGACTGATGCTGGACATGTACGACTTCCGCAACGACATCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTCgtaaggcacacatgattacgtgtacaatcgcctctgaattcccgatgaatctgacgaacacgaga---gcttttgatctgatcaatgtgttttaattcgagcag---------------------
||||||||| | || ||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||  |||||||||||||||||| || |||||     | |   |        | | |||  |  ||  |          |  | | |  |||   ||| |   ||||| |   | |||    | |  ||                       
AACGGCGTGAGGGGTCTGATGCTGGACATGTACGACTTCCGCAACGACGTCTGGCTCTGCCACTCCTACGGCGGCATCTGCCAGAACTTCACCGCGTTTgtaagctctccctccctgtccactgattagccattagatcgctcgcctccacggagtaaagtagaccagctctgtctctgacct-cgagttcccctgctggcgacggcaacaatggcactggcag

upper sequence: LOC_Os04g35100.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G078650_T01 (Zea mays), 5'ss of exon 1
-AACGGCGTGCGAGGACTGATGCTGGACATGTACGACTTCCGCAACGACATCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTCgtaaggcacacatgattacgtgtacaatcgcctctgaattcccgatgaatctgacgaacacgaga---gcttttgatctgatcaatgtgttttaattcgagcag---------------------
 ||||||||| | || ||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||  |||||||||||||||||| || |||||     | |   |        | | |||  |  ||  |          |  | | |  |||   ||| |   ||||| |   | |||    | |  ||                       
GAACGGCGTGAGGGGTCTGATGCTGGACATGTACGACTTCCGCAACGACGTCTGGCTCTGCCACTCCTACGGCGGCATCTGCCAGAACTTCACCGCGTTTgtaagctctccctccctgtccactgattagccattagatcgctcgcctccacggagtaaagtagaccagctctgtctctgacct-cgagttcccctgctggcgacggcaacaatggcactggcag

upper sequence: LOC_Os04g35100.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S62_51V6.1 (Physcomitrella patens), 5'ss of exon 4
AACGGCGTGCGAGGACTGATGCTGGACATGTACGACTTCCGCAACGACATCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTCgtaaggcacacatgattacgtgtacaatcgcctctgaattcccgatgaatctgacgaacacgagagcttttgatct-gatcaatgtgttttaattcgagcag---------------
|| || ||||||||| ||||| ||||||||||||| ||||| ||||| |||||||||||||| || ||  | ||||  ||| |  ||||||||||||| |||||   ||   || | | |  | |  | |     ||| |   ||| | || |  || |||   | |     ||| || |      |     | ||| ||                
AATGGAGTGCGAGGATTGATGTTGGACATGTACGATTTCCGGAACGATATCTGGCTCTGCCATTCTTTTCGAGGCGTTTGCTACGACTTCACCGCATTTgtaag---catcggaatccattcagagactctaagtaatgct--atgga-ctaataaagacgtccgatccaagtcttgacccggcaatgacggtccgatcaatccatgtctgtgcag

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|29683599|gb|CB679874.1|CB679874
EST:     TCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTC                         GTGCCGGCGGTGGAGGTGCTGGGCGAGATCGAGCGGTTCTTGGCACGGAAC
genomic: TCTGGCTCTGCCACTCCTTCGGCGGCGCCTGCCAGAACTTCACCGCATTCgtaaggcaca ... attcgagcagGTGCCGGCGGTGGAGGTGCTGGGCGAGATCGAGCGGTTCTTGGCACGGAAC