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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgatattcgtctatctggcacagtttttttctctcttcagtttacctgctctagctgctcgtcgttgacattcaggagccaccccaaaaaaaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAGGCGCTCGTCAGCAGCGGCCGCACC

Basic information

species Zea mays
transcript GRMZM2G322953_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G322953_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g36270.2 (Oryza sativa), 3'ss of exon 1
----------------------------------cgatattcgtctatctggcacagtttttttctctctt-cagtttacctgctctagctgctcgtcg-ttgacattcagga-gccaccc---caaaaaaaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAGGCGCTCGTCAGCAGCGGCCGCACC
                                  |  || |  ||   |   || |    | |  |  |     |  | |  ||  ||| |  |  | | || |  |||| |  | ||| |   | |        | ||||| |||||||| |||||||| || || || |||||||| |||||||| |||||||||||||||||||||||||| 
gcaagcaaccccatctctgatccgctctactctactctactgttcctccacacaaatccatgtgatggcggatggcctcctcgcgttagttcttgtttgcttcaatttcacgctgtcacacgtacgaggtggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAGGCGCTCGTCAGCAGCGGCCGCACG

upper sequence: GRMZM2G322953_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g36270.3 (Oryza sativa), 3'ss of exon 1
----------------------------------------cgatattcgtctatctggcacagtttttttctctctt-cagtttacctgctctagctgctcgtcg-ttgacattcagga-gccaccc---caaaaaaaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAGGCGCTCGTCAGCAGCGGCCGCACC
                                        |  || |  ||   |   || |    | |  |  |     |  | |  ||  ||| |  |  | | || |  |||| |  | ||| |   | |        | ||||| |||||||| |||||||| || || || |||||||| |||||||| |||||||||||||||||||||||||| 
gtccaggcaagcaaccccatctctgatccgctctactctactctactgttcctccacacaaatccatgtgatggcggatggcctcctcgcgttagttcttgtttgcttcaatttcacgctgtcacacgtacgaggtggcggtgcagGGTGAGGAGCAGAAGAAGCTTGACGTGCTCTCCAACGAAGTCTTCGTCAAGGCGCTCGTCAGCAGCGGCCGCACG
















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|211164076|gb|FL013514.1|FL013514
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTCCTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|211164067|gb|FL013505.1|FL013505
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTCCTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|22490108|gb|BU050031.1|BU050031
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|87152940|gb|DY397729.1|DY397729
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|211164074|gb|FL013512.1|FL013512
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTCCTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|211164075|gb|FL013513.1|FL013513
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTCCTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|211164070|gb|FL013508.1|FL013508
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTCCTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
EST: gi|18654939|gb|BM499744.1|BM499744
EST:     AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAG                         GGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG
genomic: AGGCCGGCCTCGCCAAGCTCATCGGCCTCGCCGGAGAGACCAACGTCCAGgcaagcacgg ... aaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctctagctgctcgtcgttgacattcaggagccaccccaaaaaaaaaatacagGGCGAGGAGCAAAAGAAGCTGGATGTACTGTCCAACGAGGTCTTCGTGAAGGCGCTCGTCAGCAGCGGCCGCACC
                 cgttgac  putative branch site (score: 4)
                                        aaaaaaaaaataca  TA-rich tract