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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtcttttgttggaaggttcttctattacgctgcttccaaatatgccaccagaaatagattatgattccatcgaacactttctttgttgacttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATATTCCAAATGTGGGAGACATCACACCAGCTTTGAAGTATTGCCCGTCTCC

Basic information

species Zea mays
transcript GRMZM5G896082_T01
intron # 10
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|50332707|gb|CO527833.1|CO527833
EST:     CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
EST: gi|149111106|gb|EE294602.2|EE294602
EST:     CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
EST: gi|78092903|gb|DV521277.1|DV521277
EST:     CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
EST: gi|93014353|gb|EB639873.1|EB639873
EST:     CANAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
EST: gi|71763483|gb|DR961420.1|DR961420
EST:     CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
EST: gi|149058762|gb|EE156780.2|EE156780
EST:     CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAG                         GTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA
genomic: CAAAATCTCGGGTGATCACACTTCCAGAAGCATCAAATGCATAAACATAGgtacgagtct ... cttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaccagaaatagattatgattccatcgaacactttctttgttgacttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATATTCCAAATGTGGGAGACATCACACCAGCTTTGAAGTATTGCCCGTCTCC
                                       tgttgac  putative branch site (score: 3)
       aaatagattatgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtcttttgttggaaggttcttctattacgctgcttccaaatatgccaccagaaatagattatgattccatcgaacactttctttgttgacttatcacagGTGACTCTACATTTACGCCAGTAACTATAAATGGATGCTCTTTGGTCTATATTCCAAATGTGGGAGACATCACACCAGCTTTGAAGTATTGCCCGTCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG