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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcacattcgatttcgacgccccttcccgatccaaacaaatcatatactcttaactagtgcagcacagcacaactcatcatttcctttttgctctatcatgccattccatttgcctatagaaactaatgtgctgtacgtctcatctccgacctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAGGATCGCGCTCTTGGTGCCCACACAGACACCTCCTCCACTGCTCCCATCA

Basic information

species Zea mays
transcript GRMZM2G104377_T02
intron # 2
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|71440755|gb|DR821805.1|DR821805
EST:     GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATT                         AGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
genomic: GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATTgtaagcacat ... acctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
EST: gi|211528053|gb|FK968562.1|FK968562
EST:     GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATT                         AGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
genomic: GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATTgtaagcacat ... acctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
EST: gi|211528050|gb|FK968559.1|FK968559
EST:     GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATT                         AGGTCAGAAGCCACAGAMCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
genomic: GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATTgtaagcacat ... acctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
EST: gi|211528051|gb|FK968560.1|FK968560
EST:     GCCGGTTKAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATT                         AGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
genomic: GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATTgtaagcacat ... acctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
EST: gi|211528054|gb|FK968563.1|FK968563
EST:     GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATT                         AGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG
genomic: GCCGGTTGAAGGACGAGCTGATGCTCAAGACGCGGGAGCTCCACAGAATTgtaagcacat ... acctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccatttgcctatagaaactaatgtgctgtacgtctcatctccgacctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAGGATCGCGCTCTTGGTGCCCACACAGACACCTCCTCCACTGCTCCCATCA
                 aactaat  putative branch site (score: 2)
           tatagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcacattcgatttcgacgccccttcccgatccaaacaaatcatatactcttaactagtgcagcacagcacaactcatcatttcctttttgctctatcatgccattccatttgcctatagaaactaatgtgctgtacgtctcatctccgacctaaccagAGGTCAGAAGCCACAGACCAAGCTTCCTCTCATGGGATCCGTATCCATCAGGATCGCGCTCTTGGTGCCCACACAGACACCTCCTCCACTGCTCCCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC