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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcctccctccccttctcgccccctgtgtctcgccccctctgtgtctcgccccctctgtgtctcaccccctctcgccccctctgtgtctcgccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTTTGACCGCGCCAGCCTGCGCGAGTGCGAGAACAACGAGGACATGATGCGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP01639
intron # 6
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|10788293|gb|AV626013.1|AV626013
EST:     AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCAC                         CGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
genomic: AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCACgtgagtggcg ... gccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
EST: gi|6547630|gb|AV393414.1|AV393414
EST:     AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCAC                         CGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
genomic: AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCACgtgagtggcg ... gccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
EST: gi|10784537|gb|AV641209.1|AV641209
EST:     AACAAGGCCTCGGACTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCAC                         CGGCGCCTAGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGT
genomic: AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCACgtgagtggcg ... gccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGT
EST: gi|10792310|gb|AV629676.1|AV629676
EST:     AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCAC                         CGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
genomic: AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCACgtgagtggcg ... gccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
EST: gi|10792476|gb|AV629842.1|AV629842
EST:     AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCAC                         CGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT
genomic: AACAAGGCCTCGGCCTTCATCGTGTTCCCGGACGTGCGCGCCGCCTGCACgtgagtggcg ... gccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgccccctctgtgtctcaccccctctcgccccctctgtgtctcgccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTTTGACCGCGCCAGCCTGCGCGAGTGCGAGAACAACGAGGACATGATGCGC
              gtctcac  putative branch site (score: 3)
               tctcaccccctctcgc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcctccctccccttctcgccccctgtgtctcgccccctctgtgtctcgccccctctgtgtctcaccccctctcgccccctctgtgtctcgccccctcagCGGCGCCTCGGTGCTGCGCAACGAGACGTCCGTGGACGCGGTGGAGCTGTTTGACCGCGCCAGCCTGCGCGAGTGCGAGAACAACGAGGACATGATGCGC

- - - - - - - - - - - - tgtgtct