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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttgtactttggcaacaaaaaatgattgaattatgtcgttgcttggatagaaactaccagctttcataaatagtcttgatgaaccccattgagcactgagaatttacattctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCATGTTCGACAACTTGGTGACTGGACACGAGAGCTCAAGAGGGTTTTTGCA

Basic information

species Zea mays
transcript GRMZM2G138152_T02
intron # 8
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|32928792|gb|CF033604.1|CF033604
EST:     GTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: GTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|32928557|gb|CF033369.1|CF033369
EST:     AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|32929468|gb|CF034280.1|CF034280
EST:     AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|76011642|gb|DT938812.1|DT938812
EST:     GGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: GGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|32929691|gb|CF034503.1|CF034503
EST:     AGTGGGCAATATATGTTTGTTCAATGCCCAGCACTGTCACCCTTTGAATG                         GCACCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|5566901|gb|AI881812.1|AI881812
EST:     AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
EST: gi|32929564|gb|CF034376.1|CF034376
EST:     AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATG                         GCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA
genomic: AGTGGGCAATATATGTTTGTTCAATGTCCAGCAGTGTCACCCTTTGAATGgtaatttgta ... ctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatagtcttgatgaaccccattgagcactgagaatttacattctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCATGTTCGACAACTTGGTGACTGGACACGAGAGCTCAAGAGGGTTTTTGCA
        tcttgat  putative branch site (score: 4)
                                         cattctctt  putative PPT
                                   aatttacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttgtactttggcaacaaaaaatgattgaattatgtcgttgcttggatagaaactaccagctttcataaatagtcttgatgaaccccattgagcactgagaatttacattctcttaatagGCATCCGTTCTCAATTACTTCAGCGCCTGGGGATGATTATCTAAGCATTCATGTTCGACAACTTGGTGACTGGACACGAGAGCTCAAGAGGGTTTTTGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG