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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caacgcttcgtgcgttttgacgactggccacgcttctgccccgcaaacgcccactctaaccccaaccgcaactcctttccaccctcccgctggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCGCCGCCCGGCCTGCCCATGCAACCCATGGGACCGGGCGGGCCAGGCGGGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP07835
intron # 3
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|22070272|gb|BQ819671.1|BQ819671
EST:     TCGGACTGTGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGTGCATTGCGCTCACCAAACTGACCTCAC
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCAC
EST: gi|14240517|gb|BG859333.1|BG859333
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGNCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|14232108|gb|BG850924.1|BG850924
EST:     CGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGNCG
genomic: CGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGG-AGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|14228865|gb|BG847681.1|BG847681
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAAGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|10126836|gb|BE725540.1|BE725540
EST:     CGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGA
genomic: CGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGG-AGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGA
EST: gi|23361992|gb|BU649684.1|BU649684
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGNCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|22068466|gb|BQ818401.1|BQ818401
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTG
EST: gi|49464799|gb|BP092712.1|BP092712
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|22054821|gb|BQ811540.1|BQ811540
EST:     TCGGACTGGGCAGCGCCGCCAA-AGCGCCATGTG-GGAGGGTTCCTG-TG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAA
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAA
EST: gi|15691896|gb|BI716185.1|BI716185
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
EST: gi|14242508|gb|BG861324.1|BG861324
EST:     TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTG                         GCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG
genomic: TCGGACTGGGCAGCGCCGCCAAGAGCGCCATGTTCGGAGGGTTCCTGCTGgtgggtggtg ... tggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgcccactctaaccccaaccgcaactcctttccaccctcccgctggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCGCCGCCCGGCCTGCCCATGCAACCCATGGGACCGGGCGGGCCAGGCGGGC
        ctctaac  putative branch site (score: 2)
                          ctcctttccaccctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caacgcttcgtgcgttttgacgactggccacgcttctgccccgcaaacgcccactctaaccccaaccgcaactcctttccaccctcccgctggtgcacagGCTCTGATCGAGGGCCTGGGCATTGCGCTCACCAAACTGACCTCACCGCCGCCGCCCGGCCTGCCCATGCAACCCATGGGACCGGGCGGGCCAGGCGGGC

- - - - - tgcgttt
- - - - - - - - - - - - - - - - - - - - - - - acgccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacccca