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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtcttcttcactcttactcggttactcccgtttacccccctttgttacggacgcttctgtgagcatgtgattgatgtgtgggtctggaatatattattgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAATTTGACAGAACTGGTCTCTCT

Basic information

species Zea mays
transcript GRMZM2G103033_T04
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|37425182|gb|CF650328.1|CF650328
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
EST: gi|211450628|gb|FL309615.1|FL309615
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
EST: gi|211178693|gb|FL329875.1|FL329875
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACAGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
EST: gi|211258292|gb|FL356006.1|FL356006
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
EST: gi|211265619|gb|FL356060.1|FL356060
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACAGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
EST: gi|211413975|gb|FL312351.1|FL312351
EST:     TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCT                         AAATGTGAGTGGGCACAGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA
genomic: TCCGTCGAATGCAACTGCCTCCCCTCAAGGGTGTGCCGCATCACAAGCCTgtgcgtcttc ... attgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgcttctgtgagcatgtgattgatgtgtgggtctggaatatattattgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAATTTGACAGAACTGGTCTCTCT
                                            tattgat  putative branch site (score: 3)
                                     aatatattattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtcttcttcactcttactcggttactcccgtttacccccctttgttacggacgcttctgtgagcatgtgattgatgtgtgggtctggaatatattattgatgcagAAATGTGAGTGGGCACGGGAACATCTCGGCGATCCCGCGGGAGCTATTCAATTTGACAGAACTGGTCTCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT