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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGCTATTACTTACCTAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccacagtagtcttttgggacaggtagcgtttaacaaacatgtaacatggtccttgttatgcatttatcaagttctgttttttatatag

Basic information

species Zea mays
transcript GRMZM5G807639_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 5'ss of exon 4
---ACGCTATTACTTACCTAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccacagtagtcttttgggacaggtagcgtttaacaaacatgtaacatggtccttgttatgcatttatcaagttctgttttttatatag
   |||||||||||| || ||| | |||| ||||||| | ||||||||||||||||| || ||||  |||||||  ||      || || | |||  |  | || | |||  |||             |  |||  ||||| | |  | || || ||||||
AAGACGCTATTACTTGCCAAATGCCTCTCCGTACCAACTCTGGAGTAGGTCATTTGCATCTGACAATGgtaagctgcacctcctttatgaggcagacaatgctttataaaattgt-------------tcctgcccttatcgattgtttttgttcatatag

upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os04g32330.2 (Oryza sativa), 5'ss of exon 4
ACGCTATTACTTACCTAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccacagtagtcttttgggacaggtagcgtttaacaaacatgtaacatggtccttgttatgcatttatcaagttctgttttttatatag
|||||||||||| || ||| | |||| ||||||| | ||||||||||||||||| || ||||  |||||||  ||      || || | |||  |  | || | |||  |||             |  |||  ||||| | |  | || || ||||||
ACGCTATTACTTGCCAAATGCCTCTCCGTACCAACTCTGGAGTAGGTCATTTGCATCTGACAATGgtaagctgcacctcctttatgaggcagacaatgctttataaaattgt-------------tcctgcccttatcgattgtttttgttcatatag
















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|32862756|gb|CF002438.1|CF002438
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211494399|gb|FL426463.1|FL426463
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTYCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211042919|gb|FL416910.1|FL416910
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211275057|gb|FL384329.1|FL384329
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACNAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211011070|gb|FL374939.1|FL374939
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211518170|gb|FL380292.1|FL380292
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211126388|gb|FL388997.1|FL388997
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211418591|gb|FL407188.1|FL407188
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211235901|gb|FL373720.1|FL373720
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|67031724|gb|CO460473.1|CO460473
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211490936|gb|FL402016.1|FL402016
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211094733|gb|FL379398.1|FL379398
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211317708|gb|FL417584.1|FL417584
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211437186|gb|FL418966.1|FL418966
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|30306817|gb|CD001490.1|CD001490
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|37420219|gb|CF647798.1|CF647798
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211479894|gb|FL423794.1|FL423794
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211137577|gb|FL389523.1|FL389523
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211157939|gb|FL380349.1|FL380349
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|31349005|gb|CD433362.1|CD433362
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211288450|gb|FL410952.1|FL410952
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGNTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211142865|gb|FL377125.1|FL377125
EST:     AATCCATCTCTNGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGAT
genomic: AATCCATCTCT-GTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCG-AGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGAT
EST: gi|211530093|gb|FL390761.1|FL390761
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211305586|gb|FL419218.1|FL419218
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211150258|gb|FL395029.1|FL395029
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|67025111|gb|CO453860.1|CO453860
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|93017175|gb|EB642695.1|EB642695
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211347968|gb|FL368837.1|FL368837
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211431976|gb|FL418926.1|FL418926
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211539307|gb|FL400264.1|FL400264
EST:     TAATCCAKSTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211002857|gb|FL384096.1|FL384096
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211511665|gb|FL408091.1|FL408091
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         NAGAACA-GTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGAT
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGA-CAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGAT
EST: gi|211441962|gb|FL416333.1|FL416333
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|32834807|gb|CD974485.1|CD974485
EST:     GTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: GTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|28187901|gb|CB179511.1|CB179511
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
EST: gi|211063833|gb|FL423073.1|FL423073
EST:     TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCG                         GAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG
genomic: TAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccaca ... ttttatatagGAGACAAGTTCGAGGCTGTTGTGCCCTTCATGGGTGAATCTGTAACTGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACGCTATTACTTACCTAATCCATCTCTGTACCAAGTTTGGAGTAGGTCATTTGCCTCAGACAGCGgtaagccacagtagtcttttgggacaggtagcgtttaacaaacatgtaacatggtccttgttatgcatttatcaagttctgttttttatatag

- - - - - - - - - - - - - - - - - - TTGGAG