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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaatcaatgtgacagtccgtcaggtttggggagtgctgccgctgtgacttaatccctgaatcctggtatccttcctgacggcatcgcctctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTCAAGCTGGTGTCGGGCGGCACCGACAACCACATCGTGCTGGTGGACCTGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
intron # 12
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|10769510|gb|AV620335.1|AV620335
EST:     GCGCGCTGAAGCAGGCGGACACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCT
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCT
EST: gi|6542592|gb|AV388376.1|AV388376
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|14229691|gb|BG848507.1|BG848507
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|161796862|gb|FC083218.1|FC083218
EST:     GTGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|15368219|gb|BI527645.1|BI527645
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|16072819|gb|BI874815.1|BI874815
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCG
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCG
EST: gi|10773200|gb|AV624023.1|AV624023
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|10771619|gb|AV622442.1|AV622442
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|14229690|gb|BG848506.1|BG848506
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|23363125|gb|BU650945.1|BU650945
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|49462045|gb|BP089958.1|BP089958
EST:     GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
EST: gi|161817251|gb|FC104090.1|FC104090
EST:     GTGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAG                         GTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC
genomic: GCGCGCTGAAGCAGGCGGCCACCCCTGAGTTCAAGTCCTACCAGCAGCAGgtgggcccgg ... ctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacttaatccctgaatcctggtatccttcctgacggcatcgcctctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTCAAGCTGGTGTCGGGCGGCACCGACAACCACATCGTGCTGGTGGACCTGC
                            tcctgac  putative branch site (score: 2)
                                       tcgcctctc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaatcaatgtgacagtccgtcaggtttggggagtgctgccgctgtgacttaatccctgaatcctggtatccttcctgacggcatcgcctctcgccgcagGTGCTGTCCAACAGCCAGGCCCTGGCCGGCGCCCTGGCCAAGCGCGGCTTCAAGCTGGTGTCGGGCGGCACCGACAACCACATCGTGCTGGTGGACCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
-caatcaa
- - - - - - - - - - - aggtttg