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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaactttagtcattcatatgtattagagacatgtcttcctatattcctatcaccctatggttatttacagtctgtgaaatcattgttaatgtgt...

Basic information

species Zea mays
transcript GRMZM2G154890_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154890_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g22140.1 (Oryza sativa), 5'ss of exon 5
AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaactttagtcattcatatgtattagagacatgtcttcctatattcctatcaccctatggttatttacagtctg-tgaaatcattgttaatgtgt-
|||||||  |||||||||||| |||| ||||||||||||||||| || || || ||||| |||||   ||||||||| |||||||||| | |||| |||| | | | || || |||  | || | |  | ||  | | ||    |  || |  |   |  | | | |  | | |   ||| | 
AGACTAGCAGGAGCTTCATTGCTGGTGTTTGCAAATAAGCAAGATATTCAAGGCGCTCTCAAACCTTCTGAAATTGCTAAGgtaagcagattttattcatcctt-tataata-agatctatcattcattctttatcttacaggttttttctgcaacataagcttagacaaatatagttgtttc
















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|60337602|gb|DN204575.1|DN204575
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|60358498|gb|DN225471.1|DN225471
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|5919346|gb|AW054443.1|AW054443
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|60345034|gb|DN212007.1|DN212007
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|76016498|gb|DT943668.1|DT943668
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|5932640|gb|AW057001.1|AW057001
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGNGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|78082478|gb|DV510890.1|DV510890
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|60345576|gb|DN212549.1|DN212549
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|91874745|gb|EB404702.1|EB404702
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|78114766|gb|DV533154.1|DV533154
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTTTGAATTTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|211291158|gb|FL439700.1|FL439700
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|60336929|gb|DN203902.1|DN203902
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|19351517|gb|BM896049.1|BM896049
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|78112615|gb|DV531009.1|DV531009
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|78114767|gb|DV533155.1|DV533155
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|74239326|gb|DT647240.1|DT647240
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTG
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTG
EST: gi|60339777|gb|DN206750.1|DN206750
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|211435009|gb|FL439413.1|FL439413
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|71318962|gb|DR796230.1|DR796230
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGATTCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|211350430|gb|FL481328.1|FL481328
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAAATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|5770292|gb|AI973466.1|AI973466
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|32945513|gb|CF050332.1|CF050332
EST:     CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
EST: gi|50339680|gb|CO534806.1|CO534806
EST:     CAAATAAGCAAGACATCCAGGGAGCTCTAAAACCAGATGAAATTGCGAAG                         GTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC
genomic: CAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaac ... cttttttcagGTTCTGAATCTGGAAGTGATGGACAGAAGCAGGCACTGGAAGATTGTGGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAGGGAGCTCTAAAACCAGATGAAATTGCGAAGgtaagcaaactttagtcattcatatgtattagagacatgtcttcctatattcctatcaccctatggttatttacagtctgtgaaatcattgttaatgtgt

- - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG