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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggcctgccaacctctgctcaacggcaccctgaccagacaacactcactcccgccctgctccgccccggctgccgcctggctgcgttggccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGACCAAGATCGGCTTCGAGACCAGCCTGCGCTACTCCATCCAACTCATTACG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05775
intron # 8
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|10773003|gb|AV623826.1|AV623826
EST:     TCCACTGAGCCCTACAGCGAGAAGGAGATCCGCCTCATCCTGGACATCAG                         GTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC
genomic: TCCACTGAGCCCTACAGCGAGAAGGAGATCCGCCTCATCCTGGACATCAGgtgcgcccgc ... ccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC
EST: gi|10780641|gb|AV637321.1|AV637321
EST:     TCCACTGAGCCCTACAGCGAGAAGGAGATCCGCCTCATCCTGGACATCAG                         GTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC
genomic: TCCACTGAGCCCTACAGCGAGAAGGAGATCCGCCTCATCCTGGACATCAGgtgcgcccgc ... ccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC
EST: gi|23365663|gb|BU653483.1|BU653483
EST:     GCGAGAAGGAGATCCGCCTCATCCTGGACATCAG                         GTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC
genomic: GCGAGAAGGAGATCCGCCTCATCCTGGACATCAGgtgcgcccgc ... ccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcactcccgccctgctccgccccggctgccgcctggctgcgttggccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGACCAAGATCGGCTTCGAGACCAGCCTGCGCTACTCCATCCAACTCATTACG
 cactcac  putative branch site (score: 2)
                                             ccccctgc  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggcctgccaacctctgctcaacggcaccctgaccagacaacactcactcccgccctgctccgccccggctgccgcctggctgcgttggccccctgcagGTGCGAGGAGGAGGACGTGGAGATGAGCGAGGACGCCAAGGAGCTGCTGACCAAGATCGGCTTCGAGACCAGCCTGCGCTACTCCATCCAACTCATTACG

- - - - - - - - - - - - - - - - - ccagaca
- - - - - - - - - - - - - - - - - - - - -acactca