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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggttaggagtgtggctcattcgttggtcaacctggctcgtttccttttcatgtaccgtatctcatatgtaacctgctcgtggcgttccctgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTACCAGCGGGGGAGCGAGCTGGTTGCGAAGTTGGCGGAGAGCCTGCACAGAC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98462
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|161812844|gb|FC095631.1|FC095631
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTG
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTG
EST: gi|15702699|gb|BI727004.1|BI727004
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
EST: gi|16430457|gb|BI995683.1|BI995683
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
EST: gi|10788812|gb|AV626532.1|AV626532
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
EST: gi|15694323|gb|BI718628.1|BI718628
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
EST: gi|15695620|gb|BI719925.1|BI719925
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
EST: gi|161821274|gb|FC109465.1|FC109465
EST:     GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAG                         GGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC
genomic: GCGCCGCACCCTCCGCAGCCGAATACGAGCTAATAGACCGCTGCGTGCAGgtacgtgcgt ... tgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcatgtaccgtatctcatatgtaacctgctcgtggcgttccctgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTACCAGCGGGGGAGCGAGCTGGTTGCGAAGTTGGCGGAGAGCCTGCACAGAC
                     atgtaac  putative branch site (score: 3)
                                      cgttccct  putative PPT
                   atatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aggttaggagtgtggctcattcgttggtcaacctggctcgtttccttttcatgtaccgtatctcatatgtaacctgctcgtggcgttccctgcatcacagGGTCTGTCGGCCGTGTTCCTGGCGCTGCGCCGGCGACCCGTAATCCGCTACCAGCGGGGGAGCGAGCTGGTTGCGAAGTTGGCGGAGAGCCTGCACAGAC

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