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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatctacaaccccccttctctgtacgatttcttgcaacgccctcctgtccaaaccccttcccatccgtgctccgccgccgccaccccctgctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCCTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04078
intron # 9
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|16436290|gb|BM001510.1|BM001510
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|15703791|gb|BI728096.1|BI728096
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|15692909|gb|BI717214.1|BI717214
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|22067396|gb|BQ817528.1|BQ817528
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|8287566|gb|BE025125.1|BE025125
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|49459889|gb|BP087802.1|BP087802
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|16073521|gb|BI875517.1|BI875517
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|22063723|gb|BQ815383.1|BQ815383
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
EST: gi|22071124|gb|BQ820462.1|BQ820462
EST:     GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATG                         GCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC
genomic: GGCCTACAACTTCTCCGAGCTGATTGAGTACCACGCCGTGGACACATATGgtacgagggg ... gctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtccaaaccccttcccatccgtgctccgccgccgccaccccctgctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCCTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG
                                       ccccctgct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatctacaaccccccttctctgtacgatttcttgcaacgccctcctgtccaaaccccttcccatccgtgctccgccgccgccaccccctgctgctgcagGCGAGTTCGTGGACGCCAACGAGGAGCTGCTCAAGTCGCTGCCGCCACCCCTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- atctaca
- - - - - - - - - - -tgtacga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccccc