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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATGTGGTGCTTGTTGGCGACATCGGTGGCACGAATGCACGCCTGTCGGCATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcaccacggcaatggcacccccccgacttggcccaagcgaccacggcacgttgcactgccgactttgccccgacccgccgatccccgcacgcgcgcccccgcgcgcattacaaaatcaacacag

Basic information

species Chlamydomonas reinhardtii
transcript EDP09343
intron # 2
splice site 5'
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|16438523|gb|BM003743.1|BM003743
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|14233510|gb|BG852326.1|BG852326
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|10771456|gb|AV622279.1|AV622279
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGCCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|15368356|gb|BI527782.1|BI527782
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|22055102|gb|BQ811679.1|BQ811679
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|15373011|gb|BI532437.1|BI532437
EST:     CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
EST: gi|14232529|gb|BG851345.1|BG851345
EST:     CATGGAGGGTCGACCTGGA-GGCGCAGGCGCGACGCAAATCGACAACGAG                         ACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC
genomic: CATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcacca ... atcaacacagACGTACCCAAGTCAGGACTTCAAGAGCCTAGACGCGGTGGTAGATGCCTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGATGTGGTGCTTGTTGGCGACATCGGTGGCACGAATGCACGCCTGTCGGCATGGAGGGTCGACCTGGAGGGCGCAGGCGCGACGCAAATCGACAACGAGgtgggcaccacggcaatggcacccccccgacttggcccaagcgaccacggcacgttgcactgccgactttgccccgacccgccgatccccgcacgcgcgcccccgcgcgcattacaaaatcaacacag

- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG