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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGCCTACTTACAACAAACTAGCCAAGCATCTAAGTGGAGTTGACTCCCTTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtattactgccgtagatggttggttttggctgaccatccattttttttgaaaaatattcttttttttctttatatttatcatttttaaaacttatc...

Basic information

species Zea mays
transcript GRMZM2G033829_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G033829_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os02g01010.1 (Oryza sativa), 5'ss of exon 10
GGAGCCTACTTACAACAAACTAGCCAAGCATCTAAGTGGAGTTGACTCCCTTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtattactgccgtagatggttggttttggctgac---catccattttttttgaa--aaatattcttttttttc-tttatatttatcatttttaaaacttatc
||||||||| |||||||| ||||  ||||||||  ||||  ||||||||||||| ||||| ||||||||||| ||| ||||||||||||||||||||||||| |||  | || ||       |||||||||||| |     | ||  |||| ||||||    |||||      |    |||  |   |  |  |  | |  |||  
GGAGCCTACCTACAACAAGCTAGGAAAGCATCTCCGTGGCATTGACTCCCTTGTAATAGCTAAAATGGATGGCACTGCCAATGAGCATCCACGTGCAAAGgtctgttctgcttcct------gttggttttggcagtttcacttcacttttctttgaactggatattagaaagtaaaatttggaggcacgaaatgaagagtttaat
















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|211287726|gb|FL479937.1|FL479937
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|88753885|gb|DY538026.1|DY538026
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTTTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|76293094|gb|DV032662.1|DV032662
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|211432368|gb|FL434135.1|FL434135
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|71331475|gb|DR802579.1|DR802579
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|5770161|gb|AI973335.1|AI973335
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|78113406|gb|DV531798.1|DV531798
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTTTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|5325044|gb|AI783235.1|AI783235
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|211432367|gb|FL434134.1|FL434134
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|5846856|gb|AI999939.1|AI999939
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT
EST: gi|110481095|gb|EE010948.1|EE010948
EST:     TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAG                         TCTGACGGATACCCAACAANNNNNNNCTATCCAGCTGGGAAGAAAAGCTTT
genomic: TTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtatta ... tgtgttacagTCTGACGGATACCCAACAATTCTCTTCTATCCAGCTGGGAAGAAAAGCTTT

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGCCTACTTACAACAAACTAGCCAAGCATCTAAGTGGAGTTGACTCCCTTGTGATAGCCAAAATGGATGGTACTACCAATGAGCATCCACGTGCAAAGgtttgtattactgccgtagatggttggttttggctgaccatccattttttttgaaaaatattcttttttttctttatatttatcatttttaaaacttatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG