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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgcttagcacctggagcgggaatcactccacaattccacacacacaatcgtgtacgtgttcctaagctacccacacaccctgactgccttgctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGCGAGGCTCGCGGTGGTTAAAAACAAGTGCAGCTTTGTAACGTTGGATGCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP05604
intron # 3
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|23364397|gb|BU652217.1|BU652217
EST:     TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGAGCGTTACGTTCAC                         CTACCACCCGGGGCCGTGGACGTGGAGGTGCT
genomic: TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCACgtgagtgggg ... gctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCT
EST: gi|22076939|gb|BQ825715.1|BQ825715
EST:     TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCAC                         CTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
genomic: TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCACgtgagtgggg ... gctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
EST: gi|16434177|gb|BI999403.1|BI999403
EST:     TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCAC                         CTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
genomic: TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCACgtgagtgggg ... gctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
EST: gi|161802750|gb|FC092457.1|FC092457
EST:     TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCAC                         CTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
genomic: TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCACgtgagtgggg ... gctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
EST: gi|15704973|gb|BI729278.1|BI729278
EST:     TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCAC                         CTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC
genomic: TGTCTGTGCGCAACTGCTTCATTCGTGGCTCCGTCGTGCGTTACGTCCACgtgagtgggg ... gctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcgtgtacgtgttcctaagctacccacacaccctgactgccttgctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGCGAGGCTCGCGGTGGTTAAAAACAAGTGCAGCTTTGTAACGTTGGATGCC
                                ccctgac  putative branch site (score: 3)
                                         ccttgctctt  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgcttagcacctggagcgggaatcactccacaattccacacacacaatcgtgtacgtgttcctaagctacccacacaccctgactgccttgctcttacagCTACCACCCGGGGCCGTGGACGTGGAGGTGCTTCACGACGCCACGCGGCGCGAGGCTCGCGGTGGTTAAAAACAAGTGCAGCTTTGTAACGTTGGATGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - aatcact
- - - - - - - - - - - - - -ccacaat
- - - - - - - - - - - - - - - - - -ccacaca
- - - - - - - - - - - - - - - - - - -acacaca
- - - - - - - - - - - - - - - - - - - - - - - -tcgtgta