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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTGAGAGAAGCTATTCACGGTCTCCATCCCCACGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaagaaaggaaaccccttattggtcatgtattttgtctattttgatggtgttcgctgttttttctattcttctttatcttgcatttctgttttattttcgtcaagcatcattgtgttaacaatccttctttaccctcag

Basic information

species Zea mays
transcript GRMZM2G175419_T02
intron # 7
splice site 5'
intron type U2

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|24767805|gb|CA402941.1|CA402941
EST:     AGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: AGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|101390994|gb|EB817433.1|EB817433
EST:     GGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: GGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|101391570|gb|EB817721.1|EB817721
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|60355064|gb|DN222037.1|DN222037
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|31360494|gb|CD444851.1|CD444851
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|40336635|gb|CK370705.1|CK370705
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCTATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|31360368|gb|CD444725.1|CD444725
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|61118470|gb|DN559431.1|DN559431
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|60356194|gb|DN223167.1|DN223167
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|24767689|gb|CA402831.1|CA402831
EST:     GCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: GCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|76931467|gb|DV172734.1|DV172734
EST:     ACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: ACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|67025176|gb|CO453925.1|CO453925
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|61118469|gb|DN559430.1|DN559430
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
EST: gi|60348050|gb|DN215023.1|DN215023
EST:     CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAG                         CCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA
genomic: CGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaa ... ttaccctcagCCGATCCAGATCCCCGTCTGGATCTCCTAGGGGTGGACGCCGAGACCGTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGTGAGAGAAGCTATTCACGGTCTCCATCCCCACGCCGAGGACGGGGCCGCAGCCGGAGCTACAGCAGAAGCCGGAGCTATAGgtattctaaagaaaggaaaccccttattggtcatgtattttgtctattttgatggtgttcgctgttttttctattcttctttatcttgcatttctgttttattttcgtcaagcatcattgtgttaacaatccttctttaccctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT