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'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgtttgggaagtggcttcgggaactgggtctgtgctttctggaaatgtaggactgacgctcctcctctactgtgtccgtgcctgtgtccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGCGCTGCTCAAGGCCTCGGACAATGGCAAGATCCCCATCGTCATCGACACC

Basic information

species Chlamydomonas reinhardtii
transcript EDP01639
intron # 19
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|23362012|gb|BU649832.1|BU649832
EST:     ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|15704191|gb|BI728496.1|BI728496
EST:     CCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: CCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|23365585|gb|BU653405.1|BU653405
EST:     ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCA-GGACGCCGCCGCCAGCA-GGGCGCGGAGCTGGAGGCGGC
genomic: ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|16436676|gb|BM001896.1|BM001896
EST:     CCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: CCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|15704115|gb|BI728436.1|BI728436
EST:     CCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: CCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|16436761|gb|BM001981.1|BM001981
EST:     CCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: CCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|23358659|gb|BU646479.1|BU646479
EST:     ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
EST: gi|49470750|gb|BP098611.1|BP098611
EST:     ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAG                         CCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC
genomic: ATCATCCCCGAGGGCGTGGCCAGCCAGTGCTGCGGCATGATGTTCAACAGgtgaggcgac ... ccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgtaggactgacgctcctcctctactgtgtccgtgcctgtgtccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGCGCTGCTCAAGGCCTCGGACAATGGCAAGATCCCCATCGTCATCGACACC
        gactgac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattgtttgggaagtggcttcgggaactgggtctgtgctttctggaaatgtaggactgacgctcctcctctactgtgtccgtgcctgtgtccgcgcacagCCGCGGCTTCAAGGACGCCGCCGCCAGCAAGGGCGCGGAGCTGGAGGCGGCGCTGCTCAAGGCCTCGGACAATGGCAAGATCCCCATCGTCATCGACACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
-attgttt
- - - - - - - - - - - - - - - gtctgtg
- - - - - - - - - - - - - - - - - - - - - - - - tgtagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctgt