Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcctgattcccggtgcccccacgactccacctgcggagccgcccaaacctcatgtccccgccctccttccctgctccccccccccccatctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCACGGTGGATGAGGCGACCGCCATGATGGAGGCCGGCATTGCCGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO99016
intron # 2
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|161814305|gb|FC102071.1|FC102071
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|23365807|gb|BU653627.1|BU653627
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGNCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|161801164|gb|FC087062.1|FC087062
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|22072377|gb|BQ821715.1|BQ821715
EST:     CGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: CGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|16428904|gb|BI994130.1|BI994130
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|161818776|gb|FC104211.1|FC104211
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|10781453|gb|AV638133.1|AV638133
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|12250689|gb|BF860552.1|BF860552
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGGTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
EST: gi|23365808|gb|BU653628.1|BU653628
EST:     GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACG                         GCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA
genomic: GGACTACCTGGCCACACTCAACAAGATCAACACCGGCGGCACCGGCTACGgtaagacggc ... tctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaacctcatgtccccgccctccttccctgctccccccccccccatctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCACGGTGGATGAGGCGACCGCCATGATGGAGGCCGGCATTGCCGAG
         tgtccccgccctcctt  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgcctgattcccggtgcccccacgactccacctgcggagccgcccaaacctcatgtccccgccctccttccctgctccccccccccccatctgcgacagGCTCCTACTTCACCCTGTCGCTGTTCGACAAGATGTGGCACCCCAACCTCACGGTGGATGAGGCGACCGCCATGATGGAGGCCGGCATTGCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - -cccccac
- - - - - - - - - - - - - - -cacctgc
- - - - - - - - - - - - - - - - - - - - - gcccaaa