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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagccctgcgcctcctcgttctccagtcctccctcgctcccttcctcctcccgtccccttcttttttcatctcaagtgaaatgatgtattgttttctccctcggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCCGAAGGTGACACGGCGCTGCCGGAGAACATGCACAAGTGGAGGATGGTCA

Basic information

species Zea mays
transcript GRMZM2G095782_T04
intron # 1
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|101390146|gb|EB817005.1|EB817005
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCT--                         C-GCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
EST: gi|33468040|gb|CF245089.1|CF245089
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCG                         CAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
EST: gi|37423784|gb|CF649621.1|CF649621
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCG                         CAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
EST: gi|101391179|gb|EB817523.1|EB817523
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCG                         CAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
EST: gi|76013636|gb|DT940806.1|DT940806
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCT--                         C-GCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
EST: gi|91876899|gb|EB406856.1|EB406856
EST:     CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCT--                         C-GCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC
genomic: CGCCTCTTCCTATCCGCGCCTCCGCCACCGCCTGCGGCCGAAATACCTCGgtaaagccct ... ggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcttttttcatctcaagtgaaatgatgtattgttttctccctcggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCCGAAGGTGACACGGCGCTGCCGGAGAACATGCACAAGTGGAGGATGGTCA
                               ttgttttctccctcg  CT-rich tract
                             tattgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagccctgcgcctcctcgttctccagtcctccctcgctcccttcctcctcccgtccccttcttttttcatctcaagtgaaatgatgtattgttttctccctcggacgggcagCAGCAGCTCGCCAATGGCTGCCAACTCTCTCTTCTCGCGCCAGAGGCGGCCGAAGGTGACACGGCGCTGCCGGAGAACATGCACAAGTGGAGGATGGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG