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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggttattgatgaaagtttgaactgcgaagcagcatagggccgtcggcgttgaaagttgaaactaaccgagttgccatttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGGGTCACTACATCGTGGCTTGCGACTGGAAGCGCAATGAGCACTTCGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP09235
intron # 1
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|161816708|gb|FC102923.1|FC102923
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|14239204|gb|BG858020.1|BG858020
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|14228408|gb|BG847224.1|BG847224
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTG-CCAGCCACCTGGCCAAGCGTCTCAAGTCTGAG
EST: gi|161811869|gb|FC099166.1|FC099166
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|49459685|gb|BP087598.1|BP087598
EST:     CCCGTTCGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|15367856|gb|BI527282.1|BI527282
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|34982977|gb|CF556894.1|CF556894
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|34980878|gb|CF554866.1|CF554866
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|6544510|gb|AV390294.1|AV390294
EST:     CCCGTTCGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|14238173|gb|BG856989.1|BG856989
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGC-GCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAG
EST: gi|14227781|gb|BG846597.1|BG846597
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGCTCTGAG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAG-TCTGAG
EST: gi|49458428|gb|BP086341.1|BP086341
EST:     CCCGTTCGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|6547466|gb|AV393250.1|AV393250
EST:     CCCGTTCGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|14237815|gb|BG856631.1|BG856631
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGN
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAG-
EST: gi|161819144|gb|FC110442.1|FC110442
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|23362200|gb|BU650020.1|BU650020
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|34980880|gb|CF554867.1|CF554867
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|8514333|gb|BE122228.1|BE122228
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|14230350|gb|BG849166.1|BG849166
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCANAGTCTGAG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCA-AGTCTGAG
EST: gi|161791540|gb|FC078916.1|FC078916
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|15702608|gb|BI726913.1|BI726913
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|161821351|gb|FC109490.1|FC109490
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|15702804|gb|BI727109.1|BI727109
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|161792289|gb|FC080347.1|FC080347
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|161792216|gb|FC079819.1|FC079819
EST:     CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
EST: gi|49469894|gb|BP097755.1|BP097755
EST:     CCCGTTCGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTGACAG                         GCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG
genomic: CCCGTTTGAGCCCTACTGGCCCAGTGCCAAGCTCAGGATTTGCGTTACAGgtggttattg ... tttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatagggccgtcggcgttgaaagttgaaactaaccgagttgccatttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGGGTCACTACATCGTGGCTTGCGACTGGAAGCGCAATGAGCACTTCGCG
                            aactaac  putative branch site (score: 1)
                                             tttcgttc  putative PPT
                           aaactaa  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggttattgatgaaagtttgaactgcgaagcagcatagggccgtcggcgttgaaagttgaaactaaccgagttgccatttcgttcagGCGCGGGCGGCTTCATTGCCAGCCACCTGGCCAAGCGTCTCAAGTCTGAGGGTCACTACATCGTGGCTTGCGACTGGAAGCGCAATGAGCACTTCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG