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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttccgcgacgctgtgccacgcaggccacgcacacgcccggccccaccggtcaagtaaacccccttccctcgtctattttccattctcgcctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGCGAGTCCATCCTAAGCGTGGCCCTGGACAAGGGTCTGGACCTCCCCCACG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98400
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|22071397|gb|BQ820735.1|BQ820735
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10770041|gb|AV620866.1|AV620866
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10771566|gb|AV622389.1|AV622389
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10779692|gb|AV636372.1|AV636372
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|7426736|gb|AW660909.1|AW660909
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10768355|gb|AV619180.1|AV619180
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10768984|gb|AV619809.1|AV619809
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|9441572|gb|BE442061.1|BE442061
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10770345|gb|AV621170.1|AV621170
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|7413398|gb|AW652152.1|AW652152
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10771975|gb|AV622798.1|AV622798
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|18690150|gb|BM518998.1|BM518998
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10774406|gb|AV625229.1|AV625229
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|22071396|gb|BQ820734.1|BQ820734
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10789144|gb|AV626864.1|AV626864
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10778206|gb|AV634886.1|AV634886
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10773286|gb|AV624109.1|AV624109
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10774345|gb|AV625168.1|AV625168
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|161790164|gb|FC076943.1|FC076943
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|49462624|gb|BP090537.1|BP090537
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|9458540|gb|BE452290.1|BE452290
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10771379|gb|AV622202.1|AV622202
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10768642|gb|AV619467.1|AV619467
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10769752|gb|AV620577.1|AV620577
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10775871|gb|AV632551.1|AV632551
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10772874|gb|AV623697.1|AV623697
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|10774257|gb|AV625080.1|AV625080
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
EST: gi|49462223|gb|BP090136.1|BP090136
EST:     TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAG                         ATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC
genomic: TCAGCAGCCGTCGCAGCGTCCGCGTTATGGCGACGCGCACCACTTACAAGgcgagtgcgg ... ctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accggtcaagtaaacccccttccctcgtctattttccattctcgcctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGCGAGTCCATCCTAAGCGTGGCCCTGGACAAGGGTCTGGACCTCCCCCACG
              cccccttccctcgtct  CT-rich tract
                           tctatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttccgcgacgctgtgccacgcaggccacgcacacgcccggccccaccggtcaagtaaacccccttccctcgtctattttccattctcgcctccccgcagATCAGCCTGACGCATGAAGGCAAGCAGGTGGATCTGGCCGTGCCTGAGGGCGAGTCCATCCTAAGCGTGGCCCTGGACAAGGGTCTGGACCTCCCCCACG

- - - - - - - - ccacgca
- - - - - - - - - - - - - -acgcaca