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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccccccacacttacacggttttcagctcccacgcctgctgcgtctaacccttttcctcttcctccccctgtcctccccctattctccctcccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCGGCCCTGAACGAGTCGTTGAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP01032
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|10791888|gb|AV629254.1|AV629254
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
EST: gi|6548565|gb|AV394349.1|AV394349
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
EST: gi|6548024|gb|AV393808.1|AV393808
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
EST: gi|6547878|gb|AV393662.1|AV393662
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
EST: gi|6549788|gb|AV395572.1|AV395572
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
EST: gi|10792178|gb|AV629544.1|AV629544
EST:     CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAG                         GGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG
genomic: CTTACGCTCGGCTCTCGGCCCCGCCCAAAGTGGGCGCCGAGTATGGCGAGgcaagttgcg ... ccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacccttttcctcttcctccccctgtcctccccctattctccctcccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCGGCCCTGAACGAGTCGTTGAAG
 gtctaac  putative branch site (score: 2)
       ttcctcttcctccccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccccccacacttacacggttttcagctcccacgcctgctgcgtctaacccttttcctcttcctccccctgtcctccccctattctccctcccctccacagGGCTTCATGCAGTTCCGGCTGGGTGGTGAGCCGCGGCGGCTGGACGTGGCGGCCCTGAACGAGTCGTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- -cccacac
- - - - - - acacggt
- - - - - - - - - - - - -ctcccac