Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatgtatcgtattatgtgttgctacagacccctgttttcttgttatttaataactgagtgtgatatttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG

Basic information

species Zea mays
transcript GRMZM2G021270_T02
intron # 15
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|211354438|gb|FK991815.1|FK991815
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGNTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|211354445|gb|FK991822.1|FK991822
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|86465874|gb|DY232247.1|DY232247
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|211354440|gb|FK991817.1|FK991817
EST:     CTTGTTTGATTCAGATGGNAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|211354441|gb|FK991818.1|FK991818
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|32930202|gb|CF035014.1|CF035014
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|211354443|gb|FK991820.1|FK991820
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
EST: gi|211354442|gb|FK991819.1|FK991819
EST:     CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAA                         TACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
genomic: CTTGTTTGATTCAGATGGTAAAATTCGGAAATATGACACTCCTGAGCAAAgtaagtgatg ... atttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctacagacccctgttttcttgttatttaataactgagtgtgatatttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG
                            taataac  putative branch site (score: 1)
                                            tattttt  putative PPT
             tgttttcttgttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgatgtatcgtattatgtgttgctacagacccctgttttcttgttatttaataactgagtgtgatatttttgcagTACTTGAGGAATTCTTTCAATTAAGGCTTGAATTCTATTGTAAGAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA