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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtctctgattggctagatagtgctactggattgtgctcgtgatcccaatttgcagtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag

Basic information

species Oryza sativa
transcript LOC_Os07g38530.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g38530.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G034779_T01 (Zea mays), 5'ss of exon 4
TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtctctgattggctagatagtgctactggattgtgct-cgtgatcccaatttgcagtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag
|||||||||||||||||||| || |||||||| ||||||||||| || ||||| ||||| |||||||||||||||||||||||||| ||||||||||| |||||| | ||  ||||| |||   |||  | |    ||| || |   ||||| ||| | ||| ||| |   ||| ||||| || ||| | || |||| |||||| |||| |||
TGTGACAACATCTTCGTGAACGGCAACCAGGGCGAGGTCAAGATTGGCGACCTCGGCCTCGCCGCCATCCTCCGCAAGTCCCACGCTGTCCACTGCGTGGgtaagccatc--tgattagctcactagcccga---aattatgttgtttgatcacaactggcaatagctactcggtaatttaatggggctagatgtgtcggattggttggatag

upper sequence: LOC_Os07g38530.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G089159_T01 (Zea mays), 5'ss of exon 4
TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtctctgattggctagatagtgctactggattgtgct-cgtgatcccaatttgcagtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag
|||||||||||||||||||| || |||||||| ||||||||||| || ||||| || || ||||||||||||||||||||||||||||||||||||||||||||  | ||  ||||| ||    ||| |  |    ||| || | |  |||| | | | ||| ||| |   |||  ||||||| | | | || |||| |||| | ||||  ||
TGTGACAACATCTTCGTGAACGGCAACCAGGGAGAGGTCAAGATTGGCGACCTCGGTCTCGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaatccatc--tgattcgcacactagcgaga---aattatgttgcccgatcactactggcaatagctgcgcggtgatttgatggcgctagatgtgtcggatcggttggacag

upper sequence: LOC_Os07g38530.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G089159_T02 (Zea mays), 5'ss of exon 4
----TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtctctgattggctagatagtgctactggattgtgct-cgtgatcccaatttgcagtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag
    |||||||||||||||||||| || |||||||| ||||||||||| || ||||| || || ||||||||||||||||||||||||||||||||||||||||||||  | ||  ||||| ||    ||| |  |    ||| || | |  |||| | | | ||| ||| |   |||  ||||||| | | | || |||| |||| | ||||  ||
CAAGTGTGACAACATCTTCGTGAACGGCAACCAGGGAGAGGTCAAGATTGGCGACCTCGGTCTCGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCgtaggtaatccatc--tgattcgcacactagcgaga---aattatgttgcccgatcactactggcaatagctgcgcggtgatttgatggcgctagatgtgtcggatcggttggacag

upper sequence: LOC_Os07g38530.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA10G39390.1 (Glycine max), 5'ss of exon 4
TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaag-------gcgtctctga------ttggctagatagtgctactggattgtgctcgtgatcccaatttgc--agtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag----------------------------
||||||||||| ||| | ||||| ||||| ||||| ||||| || ||||| ||||||||||| || || |||||||| ||  | || |  | ||| || ||| ||       || ||    |      |||  || ||      |   || | ||    || |||   | |      || ||   |   |  |       | |    || |  || |  ||| || |                            
TGTGACAACATTTTCATCAATGGCAACCAAGGGGAAGTCAAAATTGGTGATCTTGGCCTTGCTGCAATTCTCCGCAAATCTAATGCTGCTCGCTGTGTTGgtgagtagaacggcatcatgaaaaccttttgattatattccaaaagatgaatatgaaaatgttccttttctctttgataattactctccatgtctgcacagttactagtttaagact-cttgatttgcttatgcttcttctttgttttactccag

upper sequence: LOC_Os07g38530.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 5'ss of exon 4
TGTGACAACATCTTCGTGAATGGGAACCAGGGGGAGGTCAAGATCGGTGACCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtctctgattggctagatagtgctactggattgtgctcgtgatcccaatttgcagtagttttacgggaatttgattggggtggaggtgtgggattgtttggttag
||||||||||| ||||| || ||||| || || ||||||||||| || || ||||||||||| || ||  |  | |||||||| || |  |||||||| ||||     |  |  ||       |||    | |||  || |    | | | |    || |  |  || |       ||||||        ||                    
TGTGACAACATTTTCGTTAACGGGAATCAAGGAGAGGTCAAGATTGGAGATCTTGGCCTTGCTGCTATTTTAAGAAAGTCCCATGCTGCTCACTGCGTCGgtactatatg-caaatccaaatcatatcctttctgctttttagctgagtttctttgtttc--tgattgtgtaaagttttgatcttttgttag--------------------

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|29629432|gb|CB634441.1|CB634441
EST:     CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAC                         GCACGCCGGAGTTCATGGCGCCGGAGGTGTACGAGGAGGAGTACAACGAGC
genomic: CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtc ... gtttggttagGCACGCCGGAGTTCATGGCGCCAGAGGTGTACGAGGAGGAGTACAACGAGC
EST: gi|29622036|gb|CB627047.1|CB627047
EST:     CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAG                         GCACGCCGGAGTTCATGGCGCCGGAGGTGTACGAGGAGGAGTACAACGAGC
genomic: CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtc ... gtttggttagGCACGCCGGAGTTCATGGCGCCAGAGGTGTACGAGGAGGAGTACAACGAGC
EST: gi|29629006|gb|CB634017.1|CB634017
EST:     CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAG                         GCACGCCGGAGTTCATGGCGCCGGAGGTGTACGACGAGGAGTACAACGAGC
genomic: CCTTGGCCTTGCCGCCATCCTCCGCAAGTCCCACGCCGTCCACTGCGTAGgtaaggcgtc ... gtttggttagGCACGCCGGAGTTCATGGCGCCAGAGGTGTACGAGGAGGAGTACAACGAGC