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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag

Basic information

species Zea mays
transcript GRMZM2G030280_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g17260.1 (Oryza sativa), 5'ss of exon 8
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtttattat-ctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
||| |||||||| ||||| || ||||| ||||||||||||||||| || ||||||||||| |||||||||||||| ||||||||||| ||| |||||||||| | |  | |    |||  ||  |||||   | || | |||          | || | ||        |||    |  | || ||||  ||   || ||  |   |    ||                       
CAAAGCAGATGTCTTTCATGTGTTATCAGGCATGTGGAAGACACCAGCTGAGAGGTGTTTCTTGTGGCTAGGAGGATTCCGACCATCCGAGCTTTTAAAGgtctgtaaagt---cttacgatgttcttgttgtttatttgagccat------ccttctattg-----caaagcccctcctattaccaaa-accaatgtttctaccataatattat---------------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA20G39050.2 (Glycine max), 5'ss of exon 8
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
 ||||| ||||| || ||  | || ||||| |||||||||||||| || |||||||||||| | ||||| || ||||| ||  |||||||  |  | |||||      |     ||| | | |  | |   | | |||          |||   |||||| | | ||     ||||    |||| ||  | | ||  |||  ||| |    | | ||  |               
TAAGGCTGATGTCTTCCATTTGTTGTCTGGAATGTGGAAGACACCAGCAGAGAGGTGTTTTCTATGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgtg-----agctgatttgtgacccttcga--tttgctgt-------tcgcatggtttgttgaaagata----ttgtgacttttctaaaaagtagt--ttttcttggtaacatacagagta---------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA10G44270.1 (Glycine max), 5'ss of exon 8
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtata-tgcaatgtgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
 ||||| ||||| || ||  |  | ||||| |||||||||||||| || |||||||||||| | ||||| || ||||| ||  |||||||  |  | |||||    ||   |||| || | | |  |  |  | | |||   |  ||| |     |||||| | | |      ||||    |||| ||  |   ||  |||  ||| |    | |                     
TAAGGCTGATGTCTTCCATTTGCTGTCTGGAATGTGGAAGACACCAGCAGAGAGGTGTTTTCTATGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgtgagctgatttgtgattgtaacccttcag--tttgctgctct--caagg-----tttgttgaaagaca----ttgtggcttttctaaaaa---gtagttttcttggtaacataca--------------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 6
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatg-tgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
 ||||| |||||||| ||  | || ||||| |||||||| ||||| || |||||||||||||||||||| || ||||| ||  |||||||  |  | |||||  | |   || || |  || ||  |  ||||  |  |       ||||   ||| |        |    |    |||| |||  ||    |  | |    |                                 
TAAGGCTGATGTTTTCCATTTGTTGTCTGGTATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgt-caggttttgctgatccttttcattctggtttcatggtttagaaaatgggttttctagagcagtaattgggccattttgttt--aaatttttttaagaaaa---------------------------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA13G26280.1 (Glycine max), 5'ss of exon 10
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
 ||||| |||||||| ||  |  | |||||||||||||| ||||| || |||||||||||||||||||| || ||||| ||  |||||||  || | |||||      |   || |  || ||  |   |||  | |||  ||| ||  |   ||||||  ||   | | |     |||  ||  ||    |    |                                      
TAAGGCTGATGTTTTCCATTTGCTGTCTGGCATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTTCTCAAGgtgaggttatgctgatccttttcattctagtttca-tggtttag-aaaacgggttttgtagattagtaatggacagttttgtttaaattttttaaaaagaag---------------------------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT5G06950.3 (Arabidopsis thaliana), 5'ss of exon 8
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtttattatctcttgggttctactggagtagcaatgcactttttgttaatacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
 |||   ||||| |||||| |  |||||||||||||||| ||||| || ||||| ||||| |||||||| || || || ||  |||| ||  || |||||||           ||  | | || ||| |  |  || |   | ||| |    || |   ||  |||| ||     |  || |    |  | || || |   |  |                              
TAAGAATGATGTCTTTCACTTGCTATCTGGCATGTGGAAAACACCAGCTGAGAGATGTTTCTTGTGGCTCGGTGGATTTCGTTCATCCGAACTTCTAAAGgtgag--------gtcaaatttcactttgtcttcaccg--attgca-tctgtttctacatagaacataaaaagaatggtcatagggaaaaatg-tgttgaaacag------------------------------

upper sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv13s0084g00660.t01 (Vitis vinifera), 5'ss of exon 10
CAAGGCAGATGTTTTTCACGTCTTATCTGGCATGTGGAAGACACCGGCGGAGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaatgtgtt-tattatctcttgggttctactggagtagcaatgcactttttgtta-atacatgaagtttgttttctttccaagcactggtgatttcattgttgggttgctgataaaatatgcaactgcag
|||||| |||||||| ||  | ||||| ||||||||||| ||||| || |||||||||||||||||||| || ||||||||  |||||||  |  |||||||||   |  | |    | ||     ||   ||||  ||| |||   |  | ||     | | | | |  | |     ||  | ||||    |     ||||| |                                
CAAGGCTGATGTTTTCCATTTATTATCAGGCATGTGGAAAACACCTGCAGAGAGGTGTTTTTTGTGGCTTGGTGGTTTCCGTTCATCTGAACTCCTAAAGgtatgacccttttaccattttgatggtttccttctgttggggtattcagaccctcaccctgacaaataataggaagacttcatctccatatcc-----atttctt--------------------------------

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|89106563|gb|DY576780.1|DY576780
EST:     GCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAG                         CTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
genomic: GCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
EST: gi|71426015|gb|DR807065.1|DR807065
EST:     AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAG                         CTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
genomic: AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
EST: gi|74232819|gb|DT640733.1|DT640733
EST:     AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAG                         CTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
genomic: AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
EST: gi|71426016|gb|DR807066.1|DR807066
EST:     GAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAAG                         CT-CTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTC
genomic: GAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAA-Ggtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTC
EST: gi|19437057|gb|BM953467.1|BM953467
EST:     AGAGGTGTTTTTAGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAG                         CTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
genomic: AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
EST: gi|211365702|gb|FL031151.1|FL031151
EST:     AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAG                         CTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA
genomic: AGAGGTGTTTTTTGTGGCTAGGAGGTTTCCGACCATCTGAGGTTTTAAAGgtatatgcaa ... gcaactgcagCTTCTTTCGACACAACTTGAACCTCTCACCGAACAGCAGCTGTCAGGGATA