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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgctcatactttgcataatgtatctaggattatgcccccacataattatcatttatttaactttatcctcatt...

Basic information

species Zea mays
transcript GRMZM2G153945_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgctcatactttgcataatgtatctaggattatgcccccacataattatcatttatttaactttatcct-catt-----
|||| || || ||||| || ||||| |  ||  | || || |||||||| ||||| ||||| ||||||||  | ||||| || || ||||||||||||||||||   || || |   |  ||| |  |  | |   |||  ||  |  || |    | ||    ||    ||||   ||  ||   |   | |  | ||       
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagc-ttcgaga---acctgctag-catttaatttttatatc-tacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg

upper sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT2G43230.1 (Arabidopsis thaliana), 5'ss of exon 4
CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgctcatactttgcataat-gtatctaggattatgcccccacataattatcatttatttaactttatcctcatt
|||| ||||| ||||| |||||||| |  ||| |||| ||||||||||||||||| ||||| ||| | ||  | || |||||||| |||||||| ||||||||| |||    || ||||    |  |||    |   |||  |  | ||| ||   |  |||   |       ||                          
CCAAGATTGCTGACTTTAATCTTTCCAATCAAGCTCCTGATATGGCTGCTCGTCTTCATTCCACTAGAGTTTTGGGGACCTTCGGTTATCATGCACCAGAgtaaatatgcttca-acattgatagctcggaattttcttgattcttagtaactgaaagaatgtaactttgggtttgcag----------------------

upper sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G59350.1 (Arabidopsis thaliana), 5'ss of exon 3
CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgct-catactttgcataatgtatctaggattatgcccccacataattatcatttatttaactttatcctcatt
|||| || || || || ||||| || | ||||||||| ||||||||||||||||| ||||||||  | ||  | ||||||||||| || || || |||||||||| | |     |  |     | ||     || | | | | | | | |   | |||| |  |   ||||  |     ||                    
CCAAGATCGCTGATTTTAATCTATCGAACCAATCTCCTGATATGGCTGCTCGTCTTCATTCTACCAGAGTTTTGGGAACCTTCGGTTACCACGCACCAGAgtaatgaatgcttctgaaataatagttgatcacacagtattcttgaggaaggaaagattgtaactgtacattttcgctgttgcag----------------

upper sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv05s0124g00360.t01 (Vitis vinifera), 5'ss of exon 5
CCAAAATTGCAGACTTCAATCTTTCAAGCCAATCTCCAGATATGGCTGCTCGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattatttgacatacatatgcaattcgctcatactttgcataatgt-atct---aggattatgcccccacataattatcatttatttaactttatcctcatt
|||| |||||||| || ||||||||||  ||  |||| || ||||||||||| || ||||||||||| ||||| || ||||| || |||||||| |||||||||| |||    | || |||    | |  |  | |||||  || | | ||||     | | ||        | ||||||  |||||   | |   | ||  | 
CCAAGATTGCAGATTTTAATCTTTCAAATCAGGCTCCTGACATGGCTGCTCGCCTTCATTCTACTCGAGTCCTGGGGACCTTTGGCTATCATGCACCAGAgtaatgattctgta-acttattt--tcctttgtttctttgactattattatcttatgagttaattgtttggtaaaattatt-tttataagattgccttcttgta

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|71756905|gb|DR954842.1|DR954842
EST:     CGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGA                         GTATGCTATGACTGGCCAACTGACTCAAAAAAGTGATGTATATAGTTTTGG
genomic: CGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattattt ... tacatttcagGTATGCTATGACTGGCCAACTGACTCAAAAAAGTGATGTATATAGTTTTGG
EST: gi|148929739|gb|EC876646.2|EC876646
EST:     CGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGA                         GTATGCTATGACTGGCCAACTGACTCAAAAAAGTGATGTATATAGTTTTGG
genomic: CGTCTACATTCTACTCGTGTCCTTGGAACCTTCGGATATCATGCTCCAGAgtaattattt ... tacatttcagGTATGCTATGACTGGCCAACTGACTCAAAAAAGTGATGTATATAGTTTTGG