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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtcagattcttttcactcgatatgcagcatttatattctcgtggaagcatctgtctagaaatttttattgacggtgtgcatgctatcggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCCGAAAACGGGGGCAGTGCCACCGACGACGAGCCTCTGAAGGTGCCAATGT

Basic information

species Zea mays
transcript GRMZM2G081848_T05
intron # 7
splice site 3'
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|149110397|gb|EE294108.2|EE294108
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|148936001|gb|EC880057.2|EC880057
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|149097658|gb|EE183555.2|EE183555
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|50322319|gb|CO517445.1|CO517445
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|76920165|gb|DV168041.1|DV168041
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|149105553|gb|EE291087.2|EE291087
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGGGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|149102836|gb|EE288178.2|EE288178
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|148991599|gb|EE033130.2|EE033130
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGGGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
EST: gi|78115445|gb|DV533833.1|DV533833
EST:     GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAG                         GCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC
genomic: GAGAGACTCAGCAGAAGCCGGCAGAGGCCTCCCCGCAAGCCATCCTGCAGgtatgttctg ... ggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaagcatctgtctagaaatttttattgacggtgtgcatgctatcggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCCGAAAACGGGGGCAGTGCCACCGACGACGAGCCTCTGAAGGTGCCAATGT
                       tattgac  putative branch site (score: 2)
 tctagaaatttttatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgtcagattcttttcactcgatatgcagcatttatattctcgtggaagcatctgtctagaaatttttattgacggtgtgcatgctatcggtaccacagGCAAAGGAGGGTGAATCGAACCCTCTGATCTTGGATTCCCTGAGCGCCGCCGAAAACGGGGGCAGTGCCACCGACGACGAGCCTCTGAAGGTGCCAATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG