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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGCTATCTCCTCCGTTACAACCCTCTCCGATGTTGAGGGGCTATGTGTTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgacttctaccatgactttagactattggctagagaaatatacttatgactatgaataattgcctgccccgtcttcattgtttgttcttgaagag...

Basic information

species Zea mays
transcript GRMZM2G458549_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G458549_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g61710.1 (Oryza sativa), 5'ss of exon 8
AAAGGCTATCTCCTCCGTTACAACCCTCTCCGATGTTGAGGGGCTATGTGTTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgacttctaccatgactttagactattggctagagaaatatacttatgactatgaataattgcctgccccgtcttcattgtttgttcttgaagag-
||||||| ||||||| ||||| |||||||| |||||||||||| ||||||| ||||||||||| | ||| ||||| |||||||||| ||| || |||||||| ||  | || || || ||  ||||| |||   ||   |||  |||    |   |   |   |||   |           ||  |  || |  |    | 
AAAGGCTGTCTCCTCTGTTACCACCCTCTCTGATGTTGAGGGGTTATGTGTCTCTTTTGCTGGAAAAGAGGGTTCTTCTGATCCTGGAGTTGCCGTGAAGgtacaaaattt-tatcaggaacttagattatcctctcatgaaggatatacgtacgttccatctatttattcgagaaaagagatgatcggtacaagttaggc
















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|60349907|gb|DN216880.1|DN216880
EST:     GATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: GATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|67018909|gb|CO447658.1|CO447658
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|149071532|gb|EE159923.2|EE159923
EST:     GATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: GATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|76011230|gb|DT938400.1|DT938400
EST:     GATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: GATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|78111011|gb|DV529408.1|DV529408
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|32833835|gb|CD973513.1|CD973513
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|148960155|gb|EE153405.2|EE153405
EST:     TCCTGCAGTAGCTGTGAGG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|17921536|gb|BM259187.1|BM259187
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGGTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|211541591|gb|FL022794.1|FL022794
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGGTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|17921866|gb|BM259517.1|BM259517
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGGTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|32943061|gb|CF047880.1|CF047880
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|211541592|gb|FL022795.1|FL022795
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAAGACCCATATACAGGTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|71318358|gb|DR795941.1|DR795941
EST:     TCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|32835728|gb|CD975406.1|CD975406
EST:     TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: TTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
EST: gi|71773515|gb|DR971415.1|DR971415
EST:     AAGGTTCATTTGATCCTGCAGTAGCTGTGAAG                         AAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA
genomic: AAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgact ... catattgcagAAACTTCTGCATGAGGACCCATATACAGCTGGAGAAATAGAGAAAATTACA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGGCTATCTCCTCCGTTACAACCCTCTCCGATGTTGAGGGGCTATGTGTTTCTTTTGCTGGGAGAGAAGGTTCATCTGATCCTGCAGTAGCTGTGAAGgtgcacgacttctaccatgactttagactattggctagagaaatatacttatgactatgaataattgcctgccccgtcttcattgtttgttcttgaagag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG