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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggcaatgtggctgggtgacagggtcccaggggacggtgtgggtccgcttccgttcacagcatggctgacccgcctccgaatgcgcacccgcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCTACAAGATGGAGTACATTGACTTCGACAACAAGCCCGCCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP07868
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|49464434|gb|BP092347.1|BP092347
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|14234846|gb|BG853662.1|BG853662
EST:     GACCACCATCTATGTCAAGGGCGACCCTGTCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22051908|gb|BQ809953.1|BQ809953
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|14241958|gb|BG860774.1|BG860774
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22053051|gb|BQ810562.1|BQ810562
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|10127318|gb|BE726022.1|BE726022
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22072652|gb|BQ821990.1|BQ821990
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|42752483|gb|BP383778.1|BP383778
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22064512|gb|BQ815839.1|BQ815839
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|10773974|gb|AV624797.1|AV624797
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22057684|gb|BQ812691.1|BQ812691
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22053049|gb|BQ810561.1|BQ810561
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|10769408|gb|AV620233.1|AV620233
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|14237482|gb|BG856298.1|BG856298
EST:     ACCACCATCTATGTCAAGGGCGACCCGGCNCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: ACCACCATCTATGTCAAGGGCGACCCGGC-CAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
EST: gi|22069518|gb|BQ819085.1|BQ819085
EST:     GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACT                         GCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT
genomic: GACCACCATCTATGTCAAGGGCGACCCGGCCAAGAACAAGCTGCTGGACTgtgagtccgt ... gcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcttccgttcacagcatggctgacccgcctccgaatgcgcacccgcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCTACAAGATGGAGTACATTGACTTCGACAACAAGCCCGCCTG
                  ggctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggcaatgtggctgggtgacagggtcccaggggacggtgtgggtccgcttccgttcacagcatggctgacccgcctccgaatgcgcacccgcaaccgcagGCCCCTTCTGCCACCGCGTGCTACTGGCGTACGAGGCCAAGAAGCTACCCTACAAGATGGAGTACATTGACTTCGACAACAAGCCCGCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - gtgtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - gttcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgcgca