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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg...

Basic information

species Zea mays
transcript GRMZM2G025340_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA09G36430.1 (Glycine max), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg
||||| || || || || |||||||||||||||||||||||||||||||| ||||| ||||| || ||| |||||||||| || |||||  |      || | ||     | ||   ||  | | | ||   | || |    |   |  | || ||  |    ||| ||  |               
ATTGACGTGGAGAATCCATGTGTAATTATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCTGGGAATAACAAGGATAAATTTAAGgttat------ctcttcatgttgatactgttgtttcaataat---ccttactaagaagcaacactgacacttt---atttatcag---------------

upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT5G61460.1 (Arabidopsis thaliana), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg
||||| |||||||| || |||||  | |||||||||||||||||||| ||||| |||||||| ||||||||||| ||||| ||||||||||         | |  |    | | | ||  |  | |||    |  |   || || |||   ||  || |        || | |              
ATTGATGTTGAAAATCCGTGTGTGGTAATGAGTCAAGACAAAAGCAGGGAGTTCTTACATTCTGGAAATGACAAAGATAAATTCAAGgtat------gtcacgtgaattgatatatatatcaaagtca---accatgttgttat-tatggctgaaaattttcg--ctatctag--------------

upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT5G07660.1 (Arabidopsis thaliana), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtat----tgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg
||||| ||||| || || ||||| || |||||||||||||| ||||| ||||| |||||||| || || ||||| ||||| ||||||||||    || ||| || | |      |   ||||   ||| |     | ||| | |    || || ||    |                              
ATTGATGTTGAGAATCCCTGTGTGATAATGAGTCAAGACAAGAGCAGGGAGTTCTTACATTCTGGTAACGACAAAGATAAATTCAAGgtatatcctgtaaatctgtacgcgctgaggtaaat---ttagttgatagttttactgaatgcttttgttccgtag-----------------------------

upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv16s0013g00490.t01 (Vitis vinifera), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctg-tcagtggtctg
||||| |||||||| || ||||| || ||||||||||||||||||||||| ||||| |||||||| |||||||| ||||| ||||||||| ||   |   ||| ||     ||    |||   || ||      | ||| |   |  |   | |   |  | ||  || ||   |  ||||       
ATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAGgtaatgtgcatgaatg-aacattgcatgtgtgcagcatgcacac-tatgtcaatataccttagctat--gacactaacaca-gtatttactcag-------

upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ36741 (Selaginella moellendorffii), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg
|| || || ||||| |||||||| || ||||| |||||||| ||| | |||||  | ||||| |||||||||||||| ||||| |||||| |      |||  |  ||     |  ||| | |  |    || ||||  | |||                                           
ATAGATGTCGAAAATCCTTGTGTGATCATGAGCCAAGACAAGAGCCGCGAGTTCCTGCATTCCGGAAATGACAAGGAAAAGTTTAAGgtacttggct-ctaatccttgttgggctcatgacctgct----tgttttttgggcatag-----------------------------------------

upper sequence: GRMZM2G025340_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ27923 (Selaginella moellendorffii), 5'ss of exon 5
ATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaaactatgcaatggaacacaaatgccttattcatgtgcttttcagtcatctattattgtcaaatgcaaattcatgtggctgtcagtggtctg
|| || || ||||| |||||||| || ||||| |||||||| ||| | |||||  | ||||| |||||||||||||| |||||||||||| |      |||  |  ||     |  ||| | |  |    || ||||  | |||                                           
ATAGATGTCGAAAATCCTTGTGTGATCATGAGCCAAGACAAGAGCCGCGAGTTCCTGCATTCCGGAAATGACAAGGAAAAGTTCAAGgtacttggct-ctaatccttgttgggctcatgacctgct----tgttttttgggcatag-----------------------------------------

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|93012303|gb|EB637823.1|EB637823
EST:     ACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAG                         TTCTTTTTTAAGGCTACTCTTCTTCAGCAAGTGAATGACTTGCTTGCTACA
genomic: ACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaa ... tttgtttcagTTCTTTTTTAAGGCTACTCTTCTTCAGCAAGTGAATGACTTGCTTGCTACA
EST: gi|6021095|gb|AW066023.1|AW066023
EST:     ACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAG                         T-CTTTTTTAAGGCTACTCTTCTTCAGCAAG-GAATGACTTGCT-GCTACA
genomic: ACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAGgtattgaaaa ... tttgtttcagTTCTTTTTTAAGGCTACTCTTCTTCAGCAAGTGAATGACTTGCTTGCTACA