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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttgacttgagttcggctcggggcaccggagtcacacagacgcggttggtggccgcggcttgcccaccaacacacacgtttgagcttcagccctaaccggcacaccgacgctccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGCACCAGCTAAGGAGCAGCTACGGCAAGTGTATACACGAGGCGGCAGCGGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP08123
intron # 2
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|8932854|gb|BE227615.1|BE227615
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|15702797|gb|BI727102.1|BI727102
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|161814103|gb|FC102025.1|FC102025
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCCGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|23367589|gb|BU655407.1|BU655407
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|9458733|gb|BE452386.1|BE452386
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|10780563|gb|AV637243.1|AV637243
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|23362229|gb|BU650049.1|BU650049
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|15367845|gb|BI527271.1|BI527271
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|14230397|gb|BG849213.1|BG849213
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
EST: gi|49461355|gb|BP089268.1|BP089268
EST:     AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAA                         ATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC
genomic: AAAGAGGTCATCCGTCGGCAGCCAACGGACCTCATAGCATTCTCGGCAAAgtaggttgac ... ccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacacacacgtttgagcttcagccctaaccggcacaccgacgctccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGCACCAGCTAAGGAGCAGCTACGGCAAGTGTATACACGAGGCGGCAGCGGC
                       ccctaac  putative branch site (score: 2)
                                         cgctcccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggttgacttgagttcggctcggggcaccggagtcacacagacgcggttggtggccgcggcttgcccaccaacacacacgtttgagcttcagccctaaccggcacaccgacgctccccgcacagATACTTCACGAACCTCGCGAATGTGGCGTCTGGGGTATCAAACAGCAGCGCACCAGCTAAGGAGCAGCTACGGCAAGTGTATACACGAGGCGGCAGCGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT