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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgcctcagcgacagctgcatgaacctgtagccttgcgcttgtgcctgcacctcacgcttcggtcccccccccatctcccctgtcacttgcgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTGCTGTGGCTGCTGCTGACCGGCCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO96721
intron # 3
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|10791372|gb|AV628738.1|AV628738
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|16436775|gb|BM001995.1|BM001995
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|23359352|gb|BU647172.1|BU647172
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|10789391|gb|AV645120.1|AV645120
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|239841889|gb|GR283746.1|GR283746
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGC
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGC
EST: gi|239841885|gb|GR283742.1|GR283742
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|23365346|gb|BU653166.1|BU653166
EST:     ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
EST: gi|15704205|gb|BI728510.1|BI728510
EST:     ACCCGGAGGAGGGCATTCACTACCGTGGCCTGTCCATCCCCGAGCTGCAG                         GAGAAGCTGCCCACGGACGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG
genomic: ACCCGGAGGAGGGCATTCGCTTCCGTGGCCTGTCCATCCCCGAGCTGCAGgtgcgcaccg ... cgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcacctcacgcttcggtcccccccccatctcccctgtcacttgcgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTGCTGTGGCTGCTGCTGACCGGCCAG
    acctcac  putative branch site (score: 3)
                  tcccccccccatctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgcctcagcgacagctgcatgaacctgtagccttgcgcttgtgcctgcacctcacgcttcggtcccccccccatctcccctgtcacttgcgcctgccagGAGAAGCTGCCCGCGGCCGTCCCCGGCGGCCAGCCCATCCCCGAGGGCCTGCTGTGGCTGCTGCTGACCGGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - -agcgaca
- - - - - - - -ctgcatg
- - - - - - - - - - - - - - - - - - - - tgtgcct
- - - - - - - - - - - - - - - - - - - - - - - - -acctcac