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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggttaatttgtcatgttttctcttcatttttcacagaaagtatgcacaacctgttcatgtttacatgtagtgtgccttaatacattctattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG

Basic information

species Zea mays
transcript GRMZM2G003692_T05
intron # 6
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|31362808|gb|CD447165.1|CD447165
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|67023347|gb|CO452096.1|CO452096
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|50324032|gb|CO519158.1|CO519158
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|71320805|gb|DR797121.1|DR797121
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|211078663|gb|FL128724.1|FL128724
EST:     AATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: AATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|60353742|gb|DN220715.1|DN220715
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|91877563|gb|EB407520.1|EB407520
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|88753506|gb|DY537647.1|DY537647
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37387558|gb|CF630976.1|CF630976
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6022668|gb|AW067596.1|AW067596
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|5343223|gb|AI795408.1|AI795408
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|113703640|gb|EE681144.1|EE681144
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|78021266|gb|DV489653.1|DV489653
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|91872747|gb|EB402704.1|EB402704
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6101980|gb|AW126450.1|AW126450
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6095476|gb|AW120143.1|AW120143
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|93015973|gb|EB641493.1|EB641493
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|71758502|gb|DR956439.1|DR956439
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37376662|gb|CF624883.1|CF624883
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|37390564|gb|CF632514.1|CF632514
EST:     CCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|71768646|gb|DR966583.1|DR966583
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|32864069|gb|CF003751.1|CF003751
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
EST: gi|6194694|gb|AW146798.1|AW146798
EST:     CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAG                         TTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA
genomic: CTGCCTCCAAACATGCTCTTAATGGTTACTTTGCTTCTCTGCGATCTGAGgtacccgaaa ... tattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcacaacctgttcatgtttacatgtagtgtgccttaatacattctattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG
                                ccttaat  putative branch site (score: 4)
                                          ttctatttt  putative PPT
                                  ttaatacattctattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttggttaatttgtcatgttttctcttcatttttcacagaaagtatgcacaacctgttcatgtttacatgtagtgtgccttaatacattctattttgcagTTGTGTACAAAAGGCATTAAGGTCACTGTTATCTGCCCTGGACCGATTGAAACACTACAATCTTCTGCTGCAGCTTCTTCATCGCAAACACATTCTGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT