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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgccgggttcacgcctgtccgtgcgcactgcttcgcagctgcagctgccgcccatgaccagatgctaactttgcccgtgcgcgcgcgttctcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTAAGTCAGGACCCAGCGGCCAAGGAGTACCTGCGCACCACCAACGCACAGA

Basic information

species Chlamydomonas reinhardtii
transcript EDO96349
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|23360077|gb|BU647897.1|BU647897
EST:     CGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAG                         ATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
genomic: CGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAGgtgcggctgg ... tcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
EST: gi|23367255|gb|BU655074.1|BU655074
EST:     GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAG                         ATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
genomic: GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAGgtgcggctgg ... tcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
EST: gi|7687306|gb|AW757954.1|AW757954
EST:     GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAG                         ATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
genomic: GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAGgtgcggctgg ... tcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
EST: gi|15693288|gb|BI717593.1|BI717593
EST:     GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAG                         ATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA
genomic: GGCGCTTCCCGGACTTTGACCTGCAGGGCAAGCAGATGTACTTGGATAAGgtgcggctgg ... tcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccgcccatgaccagatgctaactttgcccgtgcgcgcgcgttctcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTAAGTCAGGACCCAGCGGCCAAGGAGTACCTGCGCACCACCAACGCACAGA
                 tgctaac  putative branch site (score: 1)
                                        cgttctc  putative PPT
                    taacttt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgccgggttcacgcctgtccgtgcgcactgcttcgcagctgcagctgccgcccatgaccagatgctaactttgcccgtgcgcgcgcgttctcggctgcagATGCAGGAGATGTCGGACCGCTATGAGATCTTCATCAAGCGCCTGGAGCTAAGTCAGGACCCAGCGGCCAAGGAGTACCTGCGCACCACCAACGCACAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - -tgcgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagatgc