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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctgttcagttcctatgaaatttaagttctctgccagaatttggctggttgatccaagttgtttcagtcactaatctcccatccctttctgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG

Basic information

species Zea mays
transcript GRMZM2G078033_T04
intron # 8
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|14190990|gb|BG833220.1|BG833220
EST:     ATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGCAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: ATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAG-AACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|31360223|gb|CD444580.1|CD444580
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|94472425|gb|EB701383.1|EB701383
EST:     GAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: GAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|33942630|gb|CF349230.1|CF349230
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|91867906|gb|EB399846.1|EB399846
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|67029948|gb|CO458697.1|CO458697
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|67021466|gb|CO450215.1|CO450215
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|149011847|gb|EE042454.2|EE042454
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|31364427|gb|CD448782.1|CD448782
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGGGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|14190983|gb|BG833213.1|BG833213
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|67012438|gb|CO441187.1|CO441187
EST:     CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
EST: gi|148966079|gb|EE017018.2|EE017018
EST:     CATGGTTTGCTGCAAATGCAGATGAAATATCTCTGAAGAACTGGGATCAG                         GAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT
genomic: CATGGTTTGCTGCAGATGCAGATGAAATATCTCTGAAGAACTGGGATCAGgttcgtgcta ... tgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggttgatccaagttgtttcagtcactaatctcccatccctttctgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG
                              tctcccatccctttct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcctgttcagttcctatgaaatttaagttctctgccagaatttggctggttgatccaagttgtttcagtcactaatctcccatccctttctgatctgcagGAGCGTGTTCTTACTGGTGGACATGGACTGATGGTAAATGGGTACTATCCTGTTATTGAAGCTCTTGCTCAAGGTCTTGACATCAGGCTTAACCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - tctgcca
- - - - - - - - - - - - - - - - - - - - - -ggctggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttca