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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTACTCGTCTCCCTGAATATGATGTACCTGTTGTTGACAAGGCTGTGGATGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGgtttgttcttgttaatctaatttgtcgtttgaaaaatctgtttgggtttttttctagtacctgacatttgattttttttgttagatgcag

Basic information

species Zea mays
transcript GRMZM2G171354_T03
intron # 12
splice site 5'
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|160481332|gb|EY254266.1|EY254266
EST:     TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAG                         ATGCAGACTCTTCTGTGAAAACTATGTCCAGGCCATCTGATTCCTCCTGGA
genomic: TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGgtttgttctt ... ttagatgcagA--C----TCTTCTGTGAAAACTATGTCCAGGCCATCTGATTCCTCCTGGG
EST: gi|40337029|gb|CK371099.1|CK371099
EST:     TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGATGCAG                    
genomic: TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCC---A---AGgtttgttctt ... ttaga
EST: gi|71447517|gb|DR828567.1|DR828567
EST:     TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAG                         ACTCTTCTGTGAAAACTATGTCCAGGCCATCTGATTCCTCCTGGGATAAGA
genomic: TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGgtttgttctt ... ttagatgcagACTCTTCTGTGAAAACTATGTCCAGGCCATCTGATTCCTCCTGGGATAAGA
EST: gi|37397469|gb|CF636033.1|CF636033
EST:     TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGATGCAG                    
genomic: TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCC---A---AGgtttgttctt ... ttaga
EST: gi|45568449|gb|CK986069.1|CK986069
EST:     TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGATGCAG                    
genomic: TGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCC---A---AGgtttgttctt ... ttaga

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTACTCGTCTCCCTGAATATGATGTACCTGTTGTTGACAAGGCTGTGGATGCTACATGGAGAAGAGAGCAGCCACGAAAGATACCATTCATGCCCCAAGgtttgttcttgttaatctaatttgtcgtttgaaaaatctgtttgggtttttttctagtacctgacatttgattttttttgttagatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG