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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcaagggctctagggctcagcccgagggccaccgcatggttccgggtgtgcggggctttgttgcttgttcggtctggttcaacctgccatccatgcgtctgctgatgtgctgatttgtaccaccctccatcacaatgcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTCATCCCGAACGACCGGCTGCTGTCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98063
intron # 5
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|161792230|gb|FC079209.1|FC079209
EST:     GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
EST: gi|9441241|gb|BE441845.1|BE441845
EST:     GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
EST: gi|14236905|gb|BG855721.1|BG855721
EST:     GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
EST: gi|161811521|gb|FC098025.1|FC098025
EST:     GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
EST: gi|10773877|gb|AV624700.1|AV624700
EST:     GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
EST: gi|23363248|gb|BU651068.1|BU651068
EST:     GCATCGTCACCACCCNCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAG                         GCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC
genomic: GCATCGTCACCACCCCCTTCACCTTCGAGGGCCGCCAGCGCGCGCAGCAGgtgatcaagg ... gcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcgtctgctgatgtgctgatttgtaccaccctccatcacaatgcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTCATCCCGAACGACCGGCTGCTGTCGG
                tgctgat  putative branch site (score: 3)
                                            tgccccc  putative PPT
                     atttgta  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatcaagggctctagggctcagcccgagggccaccgcatggttccgggtgtgcggggctttgttgcttgttcggtctggttcaacctgccatccatgcgtctgctgatgtgctgatttgtaccaccctccatcacaatgcccccaaagGCTCGCTCTGCTTTAGCCAACTTGCGTGCAGCGGTTGACACGCTCATTGTCATCCCGAACGACCGGCTGCTGTCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT