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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccacatccggcacacacattctgttccgtacacccgtgcgctcgccgcctgcacatttggtctctgatgcgccttcgttgtgccttttgctccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCGCACGAGGCGGTGGCCTTCCCCGGCGAGGTGGACCGCATCTACCTACGTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP03922
intron # 4
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|23362816|gb|BU650636.1|BU650636
EST:     CTACTACACCGTCAGCGACATCNGCCA-CGTCAGCGTGGAGGGACTCAAG                         GGCCTCACGTACCTGGACAGCACCGACGGCCGCAA
genomic: CTACTACACCGTCAGCGACATC-GCCAACGTCAGCGTGGAGGGACTCAAGgtgagaggcg ... tccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAA
EST: gi|23366171|gb|BU653991.1|BU653991
EST:     CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAG                         GGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAG
genomic: CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAGgtgagaggcg ... tccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAG
EST: gi|6543565|gb|AV389349.1|AV389349
EST:     CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAG                         GGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCG
genomic: CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAGgtgagaggcg ... tccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCG
EST: gi|8828091|gb|BE211933.1|BE211933
EST:     CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAG                         GGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCG
genomic: CCTACTACACCGTCAGCGACATCGCCAACGTCAGCGTGGAGGGACTCAAGgtgagaggcg ... tccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcctgcacatttggtctctgatgcgccttcgttgtgccttttgctccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCGCACGAGGCGGTGGCCTTCCCCGGCGAGGTGGACCGCATCTACCTACGTG
                ctctgat  putative branch site (score: 4)
                                     ccttttgctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccacatccggcacacacattctgttccgtacacccgtgcgctcgccgcctgcacatttggtctctgatgcgccttcgttgtgccttttgctccgacgcagGGCCTCACGTACCTGGACAGCACCGACGGCCGCAAGGAGAAGGCGGAGGCGCACGAGGCGGTGGCCTTCCCCGGCGAGGTGGACCGCATCTACCTACGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
-cacatcc
- - - - - -acacaca
- - - - - - - - - ttctgtt
- - - - - - - - - - - - - - -acacccg
- - - - - - - - - - - - - - - - - - - - - - - - ctgcaca