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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcattgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag

Basic information

species Zea mays
transcript GRMZM2G018508_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g06950.1 (Oryza sativa), 5'ss of exon 7
--------------------------------------------------------------TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcat-tgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag
                                                              ||||||||||||||| ||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||| || ||||||||||||||||||||||   | |  || ||  || || |  |    | || ||  |  ||| || | |||    |                     
ACTTGTATAGTGGAGGCCGAAGTTGCTGTATGTAAGGTGGTTGATTATTGGAGCTATGACTCTAAAAAGGAAACTGGTTATGTTGGTCTGAAAAATCAAGgtgctacttgctatatgaattctcttcttcagactctgtaccatattccatatttcagaaaggtacaaa-atgtagttttactggttatataattttgtacttaatatatttgtatgg-tgctaacag--------------------

upper sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ14291 (Selaginella moellendorffii), 5'ss of exon 3
TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcattgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag
 || || || || || | ||| ||||| ||||| ||||| ||||| || || |||||||||||| | ||||| ||||| ||| | |||| |||| ||||||||  | |      |||  | ||   ||  |   | | |  |   |  | |  ||                              
AAAGAAAGAGACGGGATTTGTAGGTCTGAAAAACCAAGGAGCTACTTGTTACATGAATTCTCTTTTACAGACACTGTATCACCTGCCATTTTTCCGAAAGgta--accatctcgattttcttgc--tttttttacagtt--attcgtgttggcag------------------------------

upper sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 5
TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcattgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag
 || ||||| ||||| |  |||||  | || ||||| ||||| |||||||| ||||| || || ||||||||||| |||||||| || || ||| | ||||||   || |      | |  | | ||  ||   ||| ||   || |   | ||  | |   ||| | |||              
GAAGAAGGAGACTGGTTTCGTTGGGTTGAAGAATCAGGGTGCGACCTGCTACATGAACTCACTACTTCAGACGCTTTACCACATTCCTTACTTCCGTAAGgta---acta------ttatctcttatcccttgactgttcggtct-cacagttaagttcttgtaatt-cag--------------

upper sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 5
TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcattgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag
 || ||||| ||||| | ||||||  | || ||||| ||||| |||||||| ||||| || || ||||||||||| |||||||| || || ||| | ||||||   || |      | |  | | ||  ||   ||| ||   || |   | ||  | |   | | | |||              
GAAGAAGGAGACTGGTTTTGTTGGGTTGAAGAATCAGGGTGCGACCTGCTACATGAACTCACTGCTTCAGACGCTTTACCACATTCCTTACTTCCGTAAGgta---acta------ttatctcttatcccttgactgttcggtct-cacagttaagttcttgtgatt-cag--------------

upper sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 3
TAAAAAGGAAACTGGCTATGTTGGTCTTAAAAATCAAGGTGCTACCTGCTATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacgagaaaattcacatgtcattgctcccctgctcaacctgcttggatagatgcagctaactacagatatttcttgccag
 || || || || || | ||| ||||| ||||| ||||| ||||| || || |||||||||||| | ||||| ||||| ||| | |||| |||| ||||||||  | |      |||  | ||   ||| |   | | |  |   |  | |  ||                              
AAAGAAAGAGACGGGATTTGTAGGTCTGAAAAACCAAGGAGCTACTTGTTACATGAATTCTCTTTTACAGACACTGTATCACCTGCCATTTTTCCGAAAGgta--accatctcgattttcttgc--ttgttttacagtt--attcgtgttggcag------------------------------

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|50332270|gb|CO527396.1|CO527396
EST:     ATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAG                         GCTGTTTATCACATGCCCACCACTGAGAATGATATGCCCTCAGGAAGCATC
genomic: ATATGAATTCTCTTCTTCAGACGCTGTACCACATCCCATATTTCAGAAAGgtacaaacga ... ttcttgccagGCTGTTTATCACATGCCCACCACTGAGAATGATATGCCCTCAGGAAGCATC