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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggccgcagcgccccatgcccgcccctcacctcctgcccaacacgcctgctgcccgcccctcgcctgcttcccccacgcgcccaacccccgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP02072
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|10772550|gb|AV623373.1|AV623373
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|14228932|gb|BG847764.1|BG847764
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|15692808|gb|BI717113.1|BI717113
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|15695185|gb|BI719490.1|BI719490
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|10792553|gb|AV629919.1|AV629919
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|10778846|gb|AV635526.1|AV635526
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|49461909|gb|BP089822.1|BP089822
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|23367697|gb|BU655515.1|BU655515
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|16072685|gb|BI874681.1|BI874681
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|23363461|gb|BU651281.1|BU651281
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|15695448|gb|BI719753.1|BI719753
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|8933063|gb|BE227824.1|BE227824
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACG
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACG
EST: gi|16437590|gb|BM002810.1|BM002810
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|16431544|gb|BI996770.1|BI996770
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|22050064|gb|BQ809049.1|BQ809049
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|49464632|gb|BP092545.1|BP092545
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|23365706|gb|BU653526.1|BU653526
EST:     CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: CGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
EST: gi|15697745|gb|BI722050.1|BI722050
EST:     GTCCAGCCTGGGCCCCTCTGCGCGACTACAACGTGGACATGGTGCCCAAG                         TTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC
genomic: GCCCAGCCTGGGCCCCTC-GCGCGACTACAACGTGGACATGGTGCCCAAGgtgcgggcag ... cgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctgctgcccgcccctcgcctgcttcccccacgcgcccaacccccgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG
                                         ccccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggccgcagcgccccatgcccgcccctcacctcctgcccaacacgcctgctgcccgcccctcgcctgcttcccccacgcgcccaacccccgacccccagTTCATGTTGGCCAACGGCAAGCTGGTGCGGGTGCTGCTGCACACCGACGTCGTCAAGTACCTGGAGTTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - -catgccc
- - - - - - - - - - - - ccctcac
- - - - - - - - - - - - - - - - - - - - -acacgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacccc