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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatacagcttcccctcttgcagtcgcattccgcggcctactctttttttgctctgccctcgcttgagttgttttgcttggctttcttcttcctttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAGCTCATCTTCCGTGTCTAAAGGCGCAGCTCGCCAGCGCCCTGCCGCGGAT

Basic information

species Chlamydomonas reinhardtii
transcript EDP04544
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|8576445|gb|BE128986.1|BE128986
EST:     GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
EST: gi|10127061|gb|BE725765.1|BE725765
EST:     GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
EST: gi|16438288|gb|BM003508.1|BM003508
EST:     GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGAGCACTGATCTA
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTA
EST: gi|22074064|gb|BQ823281.1|BQ823281
EST:     GTAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCG
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCG
EST: gi|14233310|gb|BG852126.1|BG852126
EST:     GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
EST: gi|8287254|gb|BE024813.1|BE024813
EST:     GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTG                         TTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG
genomic: GGAAGAAGGTGAAGGAGCAGCTGAAGCAGCTGGAATGCTTGACCGTCTTGgtaagtatac ... ttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctctgccctcgcttgagttgttttgcttggctttcttcttcctttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAGCTCATCTTCCGTGTCTAAAGGCGCAGCTCGCCAGCGCCCTGCCGCGGAT
                   ttgttttgcttggctt  CT-rich tract
                   ttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatacagcttcccctcttgcagtcgcattccgcggcctactctttttttgctctgccctcgcttgagttgttttgcttggctttcttcttcctttgtacgcagTTGATTGTCATCTTGTTTATCGGCTACTGGGCACTGATCTACCGTGTCAAGCTCATCTTCCGTGTCTAAAGGCGCAGCTCGCCAGCGCCCTGCCGCGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC