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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaccccccaaccccccaaccccccaaccgcaaccacaccacccatgcacccactctccaccactctccaccacccgcccaaccctccccctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTGGCGGCCATGTGCGACCCCAGCATGGCCACCAAGATGACGGTGCAGTTCA

Basic information

species Chlamydomonas reinhardtii
transcript EDO98592
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|6549320|gb|AV395104.1|AV395104
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10783839|gb|AV640511.1|AV640511
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10791882|gb|AV629248.1|AV629248
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10790669|gb|AV628035.1|AV628035
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6550651|gb|AV396435.1|AV396435
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10788096|gb|AV644768.1|AV644768
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10791224|gb|AV628590.1|AV628590
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTNCGAGAGAACCCCTTCCGCATCTTCGCCGCGCCCGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6549212|gb|AV394996.1|AV394996
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10784419|gb|AV641091.1|AV641091
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCG
EST: gi|10789439|gb|AV645168.1|AV645168
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCT
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCT
EST: gi|6549080|gb|AV394864.1|AV394864
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6550641|gb|AV396425.1|AV396425
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6550712|gb|AV396496.1|AV396496
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10786001|gb|AV642673.1|AV642673
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6550894|gb|AV396678.1|AV396678
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6551270|gb|AV397054.1|AV397054
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|6548102|gb|AV393886.1|AV393886
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10788069|gb|AV644741.1|AV644741
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCG
EST: gi|10783750|gb|AV640422.1|AV640422
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG                         GTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTG
EST: gi|10792422|gb|AV629788.1|AV629788
EST:     AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTTG                         GTGACGGACTTTCGAGAGAACCCCTTTCCGC
genomic: AGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCGgtaagtgaca ... ctccccccagGTGACGGACTTCCGAGAGAACCCCTT-CCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcacccactctccaccactctccaccacccgcccaaccctccccctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTGGCGGCCATGTGCGACCCCAGCATGGCCACCAAGATGACGGTGCAGTTCA
                  ctctccaccacccgcc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaccccccaaccccccaaccccccaaccgcaaccacaccacccatgcacccactctccaccactctccaccacccgcccaaccctccccctccccccagGTGACGGACTTCCGAGAGAACCCCTTCCGCATCTTCGCCGCGCACGAGGTGGCGGCCATGTGCGACCCCAGCATGGCCACCAAGATGACGGTGCAGTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
caacccc
- - - - - - - - - - - - - - - -aaccaca
- - - - - - - - - - - - - - - - - - - - - ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacccgc