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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgttcatactatcagcgccctgcgtgttgtgtcgggcgtggcgggagtcccattgaagggggcgcatcattcacgcgtgtcgtccgttgcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCCAAGTACATCCACACCTTCCAGTTCCTGTACTACTTCTCCAGTTTCTGGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04436
intron # 9
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|161794609|gb|FC081991.1|FC081991
EST:     AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
EST: gi|161810717|gb|FC098495.1|FC098495
EST:     AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
EST: gi|161811059|gb|FC095288.1|FC095288
EST:     AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
EST: gi|161802464|gb|FC091014.1|FC091014
EST:     AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
EST: gi|161809214|gb|FC095244.1|FC095244
EST:     AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: AGCCGTGGATGGGCCGCATGCGCATGCAGGTCATGGGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
EST: gi|161817805|gb|FC100016.1|FC100016
EST:     GGCTTCGCATGGATG                         TTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC
genomic: GGCTTCGCATGGATGgtgagtcgtg ... gcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagtcccattgaagggggcgcatcattcacgcgtgtcgtccgttgcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCCAAGTACATCCACACCTTCCAGTTCCTGTACTACTTCTCCAGTTTCTGGG
                                           ttgccctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgttcatactatcagcgccctgcgtgttgtgtcgggcgtggcgggagtcccattgaagggggcgcatcattcacgcgtgtcgtccgttgcccttgcagTTTGTTCTGTTCCTCATCTGCGCCGTGCACTACGATCAGCTGCGCACTCCCAAGTACATCCACACCTTCCAGTTCCTGTACTACTTCTCCAGTTTCTGGG

- - -tcatact
- - - - - - - - - - - tgcgtgt
- - - - - - - - - - - - - - -tgtgtcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcattca