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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt...

Basic information

species Zea mays
transcript GRMZM2G053764_T05
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 5'ss of exon 5
CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgtt---ttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt--
|| |||||  | || |||||||| || || |||||||| ||||| || ||||| ||  | ||||||||||||||||||| |||||| ||   ||| |||||||     ||| ||| | || |||  |||      |  |  | | |    | || |||   |  ||  ||| | |  ||     ||   ||  | |     |   
CCTCAGCTTCTTCTGTATCCAAACCCATCAGATCCATTGAATGGAGAAGCTGCTGCGTTAATGATGCGTGATCGTCCTGCTTATGAGCAACGAGTTAAAGgta----agtcgactcagattctcatgttaagagatatatcaagattctgacaaatctgtta-gtttctttctctttttcttttatttgcttgatgtgaggtaca

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 5'ss of exon 5
CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt
|| || ||  | || ||||| ||||| || |||||||| ||||| || || || ||| ||||||||||||||||||||   |||||||||| ||| ||||||    |  |    |   ||    |  |||||  |  ||| || |||            |||  | ||| | ||||  |                     
CCGCAACTTCTTCTGTATCCGAATCCGTCAGATCCATTGAATGGTGAAGCAGCTGCATTGATGATGCGTGATCGTCCTACCTATGAACAGAGAGTTAAAGgttagatattgagttg--attagattcttgttaccc-tacattatct------------tatcttcttgctcggtttcag--------------------

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv15s0046g02280.t01 (Vitis vinifera), 5'ss of exon 5
CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt-----
|| || ||  |  | ||||| || || || |||||||||||||| ||||||||||| || ||||||||||| ||  ||| ||||||||| | ||| |||||||   || ||   |  ||   |||   | |    |  | | |  |  | |       ||    ||| |||  | |  | || |  | | | |  | ||      
CCGCAACTTCTTTTGTATCCCAACCCATCAGATCCATTAAATGGAGAGGCTGCAGCTCTAATGATGCGTGACCGAACTGCTTATGAACAAAGAGTTAAAGgtat--tgatcatgttcaacattctaaat-tcccaatcatgcttgccttgaaatgccaatgcc-tttggttaaggtctaccaacttc-ctatgattgctccaata

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 5'ss of exon 5
CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgt-tgtcta-taattctaagatattgttttgtttggttgaaacatcacctccaggcctactt-
|| || ||  | || || || || || || |||||||| ||||| ||||||||||| ||||||||||| ||||| |||| ||||||||| | |||||||||||  |  ||||     || | ||| ||       ||||| | ||| || | ||     |  |   |    |   | |||| | |||  |        | |  
CCTCAACTTCTTCTCTACCCCAACCCATCAGATCCATTGAATGGAGAGGCTGCAGCCCTGATGATGCGAGATCGGCCTGCTTATGAACAAAGAGTGAAAGgta--gcagtccttctcaagcttctagtc-cccatagtacatatgtttactcataaggtggcaagatcaaataatggtgaatcttcaagtggtacttcattca

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|5649980|gb|AI920340.1|AI920340
EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
EST: gi|60396538|gb|DN229407.1|DN229407
EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
EST: gi|1337735|gb|W49441.1|W49441
EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
EST: gi|5608383|gb|AI901960.1|AI901960
EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
EST: gi|113551844|gb|DW724990.1|DW724990
EST:     GCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGG
genomic: GCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAA-Ggtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGG
EST: gi|87156694|gb|DY401483.1|DY401483
EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG