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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgtctcttgttgccctcacaatttagatttctcctccattgctggtgctataatagtaaaccgattatttgcggcgacgatgggaaattgtgtgtgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGATAAACTACATGGTGAAGAAAG

Basic information

species Zea mays
transcript AC234160.1_FGT003
intron # 3
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|78081257|gb|DV509669.1|DV509669
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|78104077|gb|DV522495.1|DV522495
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|148941093|gb|EC885955.2|EC885955
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|93016856|gb|EB642376.1|EB642376
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|101386378|gb|EB815208.1|EB815208
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|71437588|gb|DR818638.1|DR818638
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
EST: gi|148979769|gb|EE026820.2|EE026820
EST:     GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAA                         ATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA
genomic: GGGGTTCGACGCTTACCGGTTTTCGATCTCTTGGTCAAGAATATTCCCAAgtatattgtc ... tgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatagtaaaccgattatttgcggcgacgatgggaaattgtgtgtgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGATAAACTACATGGTGAAGAAAG
              attattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatattgtctcttgttgccctcacaatttagatttctcctccattgctggtgctataatagtaaaccgattatttgcggcgacgatgggaaattgtgtgtgttacgtagATGGAACCGGAGAAGTGAACTGGAAAGGAGTGGCGTACTACAACAGGCTGATAAACTACATGGTGAAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA