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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTGATATTGCTGAACTAGAGTTAAAGCTCTCGGAGTATACCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataatagaatatacaactgtacttatgttttaagttcagcaccacttcccccaaattaatgatggtttatgtatgaacggaaacttggacagactttt...

Basic information

species Zea mays
transcript GRMZM2G075101_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075101_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g64920.1 (Oryza sativa), 5'ss of exon 6
GCCTGATATTGCTGAACTAGAGTTAAAGCTCTCGGAGTATACCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataatagaatatacaactgtacttatgttttaagttcagcaccacttcccccaaattaatgatggtttatgtatgaacggaaacttggacagactttt
|||||||||  | ||||| ||||| |||||||| |||||||| ||||||||||| ||| |||| |  |||||||||||||||||||| |||||||       |  ||| |   |   |  ||   |||      |   |||      ||| |   || |   |  |    | |   ||  |          
GCCTGATATAACAGAACTGGAGTTGAAGCTCTCCGAGTATACTAAAAAGATGTCAAATTTGCAACTGATGGTTCAGGAGTTAGCATCTAAGgtatgc---gcttaacagccacataaaccttgatagtctgtagcatgttctatgctatttacactgatg-gtacaattgctgttgctcag----------
















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|93012884|gb|EB638404.1|EB638404
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|37398489|gb|CF636559.1|CF636559
EST:     GGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: GGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|74246322|gb|DT654236.1|DT654236
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|71761514|gb|DR959451.1|DR959451
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|6601609|gb|AW256155.1|AW256155
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|71773508|gb|DR971408.1|DR971408
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|76020456|gb|DT947626.1|DT947626
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|37388177|gb|CF631295.1|CF631295
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|31364678|gb|CD449033.1|CD449033
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
EST: gi|89250411|gb|DY622197.1|DY622197
EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCTGATATTGCTGAACTAGAGTTAAAGCTCTCGGAGTATACCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataatagaatatacaactgtacttatgttttaagttcagcaccacttcccccaaattaatgatggtttatgtatgaacggaaacttggacagactttt

- - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacggaaa