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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcaccttgagagaaccaagtaaacttcatatgctgtaatctatgtttgtctctgtatgatggatagcgaattggtttaacttcctttttattcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGGTACTCTCTTCCATAAGGATGCAAGTCTGTGGGAGCCATCCAAGGATGTT

Basic information

species Zea mays
transcript GRMZM2G375504_T03
intron # 5
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|6637086|gb|AW261358.1|AW261358
EST:     AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAG                         TGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
genomic: AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAGgtatgtattg ... attcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
EST: gi|67032674|gb|CO461423.1|CO461423
EST:     AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAG                         TGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
genomic: AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAGgtatgtattg ... attcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
EST: gi|211356649|gb|FL094995.1|FL094995
EST:     AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAG                         TGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
genomic: AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAGgtatgtattg ... attcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
EST: gi|32934967|gb|CF039779.1|CF039779
EST:     AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAG                         TGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG
genomic: AAGGCTGCTTTTGTGGCTTCGAACAGTGGCACACCTGTTGTTATTACAAGgtatgtattg ... attcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtctctgtatgatggatagcgaattggtttaacttcctttttattcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGGTACTCTCTTCCATAAGGATGCAAGTCTGTGGGAGCCATCCAAGGATGTT
                             gtttaac  putative branch site (score: 3)
 tttaacttccttttta  CT-rich tract
 tttttattcttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcaccttgagagaaccaagtaaacttcatatgctgtaatctatgtttgtctctgtatgatggatagcgaattggtttaacttcctttttattcttgaagTGGATTTGCATCTCAGAGCATTGTTAGAGTTCTCCAAGGAGAGAAGATTGGTACTCTCTTCCATAAGGATGCAAGTCTGTGGGAGCCATCCAAGGATGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG