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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatatgtaccattctattgggtaattgaagtttcagtactataaactatgatcatctatacttcagataaactgagtattttaggtgatctgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGAATTAAAAAGCTTGGATACAATGCAGTACAGATAATGGCAATCCAGGAAC

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------------------------------------------------------------------------tatatgtaccattctattgggtaattgaa-------gtttcagtactataaactatgatc--atct----atacttc---agataaactgagtattttaggtg-atctgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGAATTAAAAAGCTTGGATACAATGCAGTACAGATAATGGCAATCCAGGAAC
                                                                             |  || | |||  || |||| |  || |        |||| | ||  ||||  ||    |  || |    ||| |||   | || |  ||| || | |  ||| |  |||||  |||||||||| | | ||||| ||||||||||| |||||||| || |||||  | || |||||||||||||| ||||| || || || ||||| || || ||||
gtgtgtgtctggctccttgtcttaaataattatgttttggtccttaacatctgtgtaccaagcttctttataacgtatcaatatgccacactgttggtttgttcagtatgtttgtttgactataataacatagatcccaatttctggatatttctctatatcacgtgaataatgtcagtgtacttgttatgcagGAACCAATGGTCAATACGTATGCTAACTTTAGAGATGATGTTCTTCCCCGCATCAAAAAGCTTGGATATAATGCTGTTCAAATTATGGCCATACAAGAAC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 9
-tatatgtaccatt-ctattgggtaattgaagtttcagtactataaactatgatcatctatacttcagataaactgagtattttaggtga-tctgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGAATTAAAAAGCTTGGATACAATGCAGTACAGATAATGGCAATCCAGGAAC
    |  |  |||  || ||  ||    | |  || |   |   | ||| | |   |  | | |   |||||  ||||||   | | |   | || |   |||||||||||||||||||||||||| ||||| |||||||| || |||||  | || |||||||| || || ||||| || ||||||||||| || || || |
aaggaaatctcataactcttttgttccaggatcttgacggcaggagactttcacttttgacaatat-gataa--tgagtaacgttgttatctttgatctgcagGAACCAAAGATAAATACATATGCCAACTTTAGAGATGATGTACTTCCCCGTATAAAAAAGCTAGGCTATAATGCTGTGCAGATAATGGCCATTCAAGAGC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 9
tatatgtaccattctattgggtaattgaagtttcagtactataaactatgatcatctatac--ttcagataaactgagtattttaggtgatctgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGAATTAAAAAGCTTGGATACAATGCAGTACAGATAATGGCAATCCAGGAAC
 ||  | |  |||  | |    |    |    |||    |||    |   || ||  |||   ||     | ||| | | |  |      | ||  |   |||| |||    | || |||||||| ||||| |||||||| ||||| ||  | || |||| |||||| || ||||| || |||||||||||||| ||||| |
-attggaaaaatttaaatatccaccctacccctcatccttatgc-tttcaattatgcatagaattttttaatactcattttactgttgactttgagatgtagGAGCCAGTAGTCAACACATATGCCAACTTTAGAGATGATGTGCTACCTCGCATCAAAAGGCTTGGTTATAATGCTGTCCAGATAATGGCAATTCAGGAGC

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|211263679|gb|FL032932.1|FL032932
EST:     GGCCAAAGTCACTGNGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACCTATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|87155797|gb|DY400586.1|DY400586
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|26558524|gb|CA830759.1|CA830759
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
EST: gi|67022129|gb|CO450878.1|CO450878
EST:     GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCG                         GAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA
genomic: GGCCCAAGTCACTGCGGATATATGAATCACATGTTGGAATGAGTAGCCCGgtatgcccat ... tgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgatcatctatacttcagataaactgagtattttaggtgatctgttacacagGAACCAAAGATAAATACATATGCTAACTTCAGAGATGAGGTGCTTCCAAGAATTAAAAAGCTTGGATACAATGCAGTACAGATAATGGCAATCCAGGAAC
                             agtatttta  TA-rich tract