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

gtgcgataacagtgcaaacttatgaggtgtttgttatggtacaacactgccaatttatagtcacaagtgtcttacatgtttgtatatcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAATATTACACGTTCAATTTTCCCGAAGGATGACGATATTCTTCTTAATTATC

Basic information

species Zea mays
transcript GRMZM2G021270_T02
intron # 11
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|89106425|gb|DY576642.1|DY576642
EST:     ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
genomic: ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
EST: gi|22490068|gb|BU049991.1|BU049991
EST:     AATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTGTATCTTCGCCAAGCTGTCTAAT
genomic: AATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
EST: gi|31354680|gb|CD439037.1|CD439037
EST:     ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
genomic: ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
EST: gi|20300133|gb|BQ163076.1|BQ163076
EST:     ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
genomic: ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
EST: gi|22490085|gb|BU050008.1|BU050008
EST:     ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCGCCAAGCTGTCTAAT
genomic: ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
EST: gi|89106426|gb|DY576643.1|DY576643
EST:     ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAG                         GGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT
genomic: ATAACATCAACCTTATGTCCCCTAATGGTCAGTTTGGCACAAGAGCTCAGgtgcgataac ... atcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaacactgccaatttatagtcacaagtgtcttacatgtttgtatatcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAATATTACACGTTCAATTTTCCCGAAGGATGACGATATTCTTCTTAATTATC
                            gtcttac  putative branch site (score: 3)
                                              tcatttc  putative PPT
                                      tttgtatatcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgataacagtgcaaacttatgaggtgtttgttatggtacaacactgccaatttatagtcacaagtgtcttacatgtttgtatatcatttcagGGAGGCAAGGACGCTGCAAGTCCTCGGTATATCTTCACCAAGCTGTCTAATATTACACGTTCAATTTTCCCGAAGGATGACGATATTCTTCTTAATTATC

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