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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggcgacggaggacttgtggagcaggctgcgccgagtcattccatcagcttacgtcaccgtgcctgactgctgccgccgccgtcctgctccaccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATGCTGGAGAAGACGGCCGTGCTGTTCCGCCCCAAGCTCATTGTGGCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
intron # 7
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|10771707|gb|AV622530.1|AV622530
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
EST: gi|6542140|gb|AV387924.1|AV387924
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
EST: gi|23363367|gb|BU651187.1|BU651187
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
EST: gi|16072819|gb|BI874815.1|BI874815
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGNACTACGACAT
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCG-ACTACGACAT
EST: gi|23363125|gb|BU650945.1|BU650945
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
EST: gi|10788685|gb|AV626405.1|AV626405
EST:     GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: GCTACCAGACTGATACCAAGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
EST: gi|6542099|gb|AV387883.1|AV387883
EST:     ACCAGAGAAGATCAGCGCCACCTCCATCTACTTTGAG                         CAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG
genomic: ACCA-AGAAGATCAGCGCCACCTCCATCTACTTTGAGgtgcatgggg ... caccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcttacgtcaccgtgcctgactgctgccgccgccgtcctgctccaccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATGCTGGAGAAGACGGCCGTGCTGTTCCGCCCCAAGCTCATTGTGGCGG
                gcctgac  putative branch site (score: 3)
                                     tcctgctccacccc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggcgacggaggacttgtggagcaggctgcgccgagtcattccatcagcttacgtcaccgtgcctgactgctgccgccgccgtcctgctccaccccgcagCAAATGCCGTACCGCCTGAACGAGGAGACTGGCCTGATCGACTACGACATGCTGGAGAAGACGGCCGTGCTGTTCCGCCCCAAGCTCATTGTGGCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - ttgtgga