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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACCTGGTGCTTTCTACAAGGGATTCATTGCAAACTTTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaatgtgcacgccctctcattcagggttgcttttctattattttgtttatgtttagtgaatactaaattgtagaaggtattggtgaatttaaaag

Basic information

species Zea mays
transcript GRMZM5G852877_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G852877_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os01g74640.3 (Oryza sativa), 5'ss of exon 8
GGACCTGGTGCTTTCTACAAGGGATTCATTGCAAACTTTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaatgtgcacgccctctcattcagggttgcttttctattattttgtttatgtttagtgaatactaa-------attgtagaa-ggtattggtgaatttaaaag--------------------------------------------------------------------------
|||| |  |||||| || || || ||||||||||||||||| || |||||||||||||||||||||||||| ||||| ||||| |||||||||   | |       || | ||     | | ||||      |   ||   |     ||  | | |||          | |||   |  ||   |  |  ||||                                                                            
GGACTTCCTGCTTTTTATAAAGGGTTCATTGCAAACTTTTGCCGCATTGGGTCATGGAATGTGATAATGTTTTTAACACTGGAGCAGgtaacattcttttttaatgctattat-----gctactttaggggaaaaatggaaagaaaaaggaagtcctagtctcatcgctatagcctgacatgcttacacctaaataagtgctctatttgttttcactctgtcatagcaaagctaatgattttatttttatttttgtgaaatgacaaaaag
















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|88748458|gb|DY532599.1|DY532599
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTTTTAACTTTGGAACAG                         GTCAAAAGATTCTTTTTATGAAGAGATGTTTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|93017381|gb|EB642901.1|EB642901
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAG                         GTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|89250280|gb|DY622066.1|DY622066
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTTTTAACTCTGGAACAG                         GTCAAAAGATTCTTTTTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|166477681|gb|EG315768.1|EG315768
EST:     CTTAACTCTGGAACAG                         GTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: CTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|6527113|gb|AW216323.1|AW216323
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAG                         GTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|32859927|gb|CD999608.1|CD999608
EST:     GGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAG                         GTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: GGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|60339014|gb|DN205987.1|DN205987
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTTTTAACTCTGGAACAG                         GTCAAAAGATTCTTTTTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|101399785|gb|EB821739.1|EB821739
EST:     TTTGTCGGATTGGGTCATGGAATGTGATAATGTTTTTAATTCTGGAACAG                         GTCAAAAGATTCTTTTTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: TTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
EST: gi|32859928|gb|CD999609.1|CD999609
EST:     GGATTGGGTCATGGAGGGGGAGAATGTGCTTAACTCTGGAACAG                         GTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT
genomic: GGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaat ... aatttaaaagGTCAAAAGATTCTTTCTATGAAGAGATGTCTGCACTGCAAGTAGGGATTGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACCTGGTGCTTTCTACAAGGGATTCATTGCAAACTTTTGTCGGATTGGGTCATGGAATGTGATAATGTTCTTAACTCTGGAACAGgtaacagaatgtgcacgccctctcattcagggttgcttttctattattttgtttatgtttagtgaatactaaattgtagaaggtattggtgaatttaaaag

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