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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACCAGGAGAAGAAGAAGGGTTTCTACACCTCAGATTTTTCCAAGCGTGATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccgtgtcacgcacccaccagccagcccagatacacaggatgtgaacacatatgcctgccagcccacagccgtggttctcatatgctttggtgg...

Basic information

species Chlamydomonas reinhardtii
transcript EDP06355
intron # 3
splice site 5'
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|15697434|gb|BI721739.1|BI721739
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161794267|gb|FC081649.1|FC081649
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|9028321|gb|BE238361.1|BE238361
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|14240466|gb|BG859282.1|BG859282
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|14242094|gb|BG860910.1|BG860910
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|14242021|gb|BG860837.1|BG860837
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161807964|gb|FC097569.1|FC097569
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|22066689|gb|BQ817082.1|BQ817082
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGA
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGA
EST: gi|161818114|gb|FC102275.1|FC102275
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|23366593|gb|BU654412.1|BU654412
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|15372828|gb|BI532254.1|BI532254
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161802719|gb|FC089137.1|FC089137
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|22070741|gb|BQ820079.1|BQ820079
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161811408|gb|FC097990.1|FC097990
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|23366648|gb|BU654467.1|BU654467
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|15702963|gb|BI727268.1|BI727268
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCAT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCAT
EST: gi|16072799|gb|BI874795.1|BI874795
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|8287317|gb|BE024876.1|BE024876
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAA
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAA
EST: gi|161803940|gb|FC093855.1|FC093855
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161810920|gb|FC099673.1|FC099673
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161817918|gb|FC103613.1|FC103613
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161796564|gb|FC082894.1|FC082894
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|15372350|gb|BI531776.1|BI531776
EST:     ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161823303|gb|FC110110.1|FC110110
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC
EST: gi|161812385|gb|FC095055.1|FC095055
EST:     ATGAGTTCACAAACACCATACGCACGGAGCAGTGGCGTGAGCAGCTCAAG                         GGCGAGAACACGCATGCAAAGAAGGCGCTAGACATGTTTGCGGAGGCTACT
genomic: ATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccg ... ttcccaccagGGCGAGAACACGCATGCAAAGAAGGCACTAGACATGTTTGCGGAGGCTACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACCAGGAGAAGAAGAAGGGTTTCTACACCTCAGATTTTTCCAAGCGTGATGAGTTCACCAACACCATTCGCACGGAGCAGTGGCGTGAGCAGCTCAAGgtgagagccgtgtcacgcacccaccagccagcccagatacacaggatgtgaacacatatgcctgccagcccacagccgtggttctcatatgctttggtgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgtgtca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgctt