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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcgggcatgtacccgcccggcactcaaaacttgatattagagattaatgaatcggttctccatggacgactaccttcccacttctgccctcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCGGTGGAGGAGGGACTGCTATGCGGCATCTCGTCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP01088
intron # 8
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|15703014|gb|BI727319.1|BI727319
EST:     TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAG                         GTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
genomic: TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAGgtggggaggc ... tcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
EST: gi|22076257|gb|BQ825033.1|BQ825033
EST:     AAGAACCTGCGGGTGGACCTGCTGGACGAG                         GTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
genomic: AAGAACCTGCGGGTGGACCTGCTGGACGAGgtggggaggc ... tcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
EST: gi|16435616|gb|BM000836.1|BM000836
EST:     TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAG                         GTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
genomic: TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAGgtggggaggc ... tcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
EST: gi|10772214|gb|AV623037.1|AV623037
EST:     TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAG                         GTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGACCGGCGGCTGGCG
genomic: TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAGgtggggaggc ... tcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
EST: gi|23365647|gb|BU653467.1|BU653467
EST:     TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAG                         GTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG
genomic: TTGGCGCCGGCTTCGTGCCCAAGAACCTGCGGGTGGACCTGCTGGACGAGgtggggaggc ... tcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgaatcggttctccatggacgactaccttcccacttctgccctcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCGGTGGAGGAGGGACTGCTATGCGGCATCTCGTCGG
 gattaat  putative branch site (score: 3)
                         ctaccttcccacttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcgggcatgtacccgcccggcactcaaaacttgatattagagattaatgaatcggttctccatggacgactaccttcccacttctgccctcgaacgcagGTGGTGAAGATCAACAGCAATGAGGCCATTGAAATGGCCCGGCGGCTGGCGGTGGAGGAGGGACTGCTATGCGGCATCTCGTCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - catgtac
- - - - - - - - - - - actcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catggac