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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcacctacccaatagattgcctgtgctcctagctgacccatatgccgcggaatcgcgctccctcttccgcccttcgacctcttcccatacctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCGCCTTCATCTGCCACTACTACAACTTCTATTTCGCACACACCGCCGGCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06362
intron # 4
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|10126949|gb|BE725653.1|BE725653
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|49459110|gb|BP087023.1|BP087023
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|14227126|gb|BG845942.1|BG845942
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|14238859|gb|BG857675.1|BG857675
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGTACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|15704927|gb|BI729232.1|BI729232
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCT
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCT
EST: gi|15370025|gb|BI529451.1|BI529451
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|14238283|gb|BG857099.1|BG857099
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|16438093|gb|BM003313.1|BM003313
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|16072111|gb|BI874107.1|BI874107
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|15702530|gb|BI726835.1|BI726835
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|15704928|gb|BI729233.1|BI729233
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGC
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGC
EST: gi|16071574|gb|BI873570.1|BI873570
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: G-AGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
EST: gi|10770350|gb|AV621175.1|AV621175
EST:     GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGG                         CCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG
genomic: GGAGCAGTCCTTCCAGCTGGCGCCCCCGGACATGAAGCCGGACGGCGCGGgtgcgtggct ... cctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcggaatcgcgctccctcttccgcccttcgacctcttcccatacctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCGCCTTCATCTGCCACTACTACAACTTCTATTTCGCACACACCGCCGGCGG
             ctccctcttccgccct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcacctacccaatagattgcctgtgctcctagctgacccatatgccgcggaatcgcgctccctcttccgcccttcgacctcttcccatacctctcacagCCGCCACCTACGTGGCCTTTCTGGAGAAGCTCGCCAAGACCGACCCGCCCGCCTTCATCTGCCACTACTACAACTTCTATTTCGCACACACCGCCGGCGG

- - - -acccaat
- - - - - - - - - tgcctgt
- - - - - - - - - - - - - - - - - - acccata