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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacggccagatgggtgaagccgggcccggtgctcgtggtgcgtatcgctgctgctcccgcaccgctgacagtatgtggtggtggtggtcccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP09235
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|161808535|gb|FC097867.1|FC097867
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161816708|gb|FC102923.1|FC102923
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14239204|gb|BG858020.1|BG858020
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14228408|gb|BG847224.1|BG847224
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161811869|gb|FC099166.1|FC099166
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161823421|gb|FC105743.1|FC105743
EST:     CCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: CCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|10791023|gb|AV628389.1|AV628389
EST:     GTATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|49463261|gb|BP091174.1|BP091174
EST:     GTATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|15367856|gb|BI527282.1|BI527282
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|34982977|gb|CF556894.1|CF556894
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|34980878|gb|CF554866.1|CF554866
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|6544510|gb|AV390294.1|AV390294
EST:     GTATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14238173|gb|BG856989.1|BG856989
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14227781|gb|BG846597.1|BG846597
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|6547466|gb|AV393250.1|AV393250
EST:     GTATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14237815|gb|BG856631.1|BG856631
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|34982976|gb|CF556893.1|CF556893
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161819144|gb|FC110442.1|FC110442
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|23362200|gb|BU650020.1|BU650020
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|34980880|gb|CF554867.1|CF554867
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|8514333|gb|BE122228.1|BE122228
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161807720|gb|FC096454.1|FC096454
EST:     CATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: CATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|14230350|gb|BG849166.1|BG849166
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161791540|gb|FC078916.1|FC078916
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|34980875|gb|CF554865.1|CF554865
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|15702608|gb|BI726913.1|BI726913
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161821351|gb|FC109490.1|FC109490
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|15702804|gb|BI727109.1|BI727109
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161792289|gb|FC080347.1|FC080347
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
EST: gi|161792216|gb|FC079819.1|FC079819
EST:     GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACG                         ATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
genomic: GCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACGgtgcgagccg ... ccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgctgctgctcccgcaccgctgacagtatgtggtggtggtggtcccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG
                  cgctgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaacggccagatgggtgaagccgggcccggtgctcgtggtgcgtatcgctgctgctcccgcaccgctgacagtatgtggtggtggtggtcccggttgcagATGGTGTCTTTCAACATGATGGAGGCGGCGCGCGTCACCGGCATCAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - atgggtg
- - - - - - - - - - - - - - - - - - - -tgcgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgtg