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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccgtaccgctgtgtgagagaggcacagctcttgtgaacgcgaacctcgacggctcctccacgaatgcgcacacactcatacacacatgcacgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP02072
intron # 5
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|10772550|gb|AV623373.1|AV623373
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|6544442|gb|AV390226.1|AV390226
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|14228932|gb|BG847764.1|BG847764
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|15692808|gb|BI717113.1|BI717113
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|15695185|gb|BI719490.1|BI719490
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|10778846|gb|AV635526.1|AV635526
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCAC
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCAC
EST: gi|49461909|gb|BP089822.1|BP089822
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|23367697|gb|BU655515.1|BU655515
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|16072685|gb|BI874681.1|BI874681
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|23363461|gb|BU651281.1|BU651281
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|15695448|gb|BI719753.1|BI719753
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|16437590|gb|BM002810.1|BM002810
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|49461921|gb|BP089834.1|BP089834
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|16431544|gb|BI996770.1|BI996770
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|22050064|gb|BQ809049.1|BQ809049
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|49464632|gb|BP092545.1|BP092545
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|23367839|gb|BU655657.1|BU655657
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|23365706|gb|BU653526.1|BU653526
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|15697745|gb|BI722050.1|BI722050
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCATCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCACAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
EST: gi|49462669|gb|BP090582.1|BP090582
EST:     TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG                         GCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG
genomic: TGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAGgtgggaggca ... acgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccgtaccgctgtgtgagagaggcacagctcttgtgaacgcgaacctcgacggctcctccacgaatgcgcacacactcatacacacatgcacgcacgcagGCCGTGGACGGCAGCTATGTGCTTCAGAAGGGCAAGATCCACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - tgtgtga
- - - - - - - - - - aggcaca
- - - - - - - - - - - - - - - -ttgtgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaca