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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcggccactaacccttgcaccgctcccgcgcccacacccggaccctcaatcgcacccgcaccctcaaccgcaccctcaccctcatccgcacccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACCTGCAACGCCGGCGCGTTCGGCCAGTTCGCCACGGGTGTGGGCAACACCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97224
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|15692279|gb|BI716584.1|BI716584
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGGACAGCCACAC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTG-ACAGCCACAC
EST: gi|23362962|gb|BU650782.1|BU650782
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
EST: gi|22052116|gb|BQ810057.1|BQ810057
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAG
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAG
EST: gi|14234198|gb|BG853014.1|BG853014
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTTCG-CACTGACAGCCACAC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTT-CGGCACTGACAGCCACAC
EST: gi|23364909|gb|BU652729.1|BU652729
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
EST: gi|15692663|gb|BI716968.1|BI716968
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
EST: gi|49464141|gb|BP092054.1|BP092054
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
EST: gi|10792828|gb|AV630194.1|AV630194
EST:     CCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: CCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
EST: gi|8401055|gb|BE056689.1|BE056689
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAG
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAG
EST: gi|15372062|gb|BI531488.1|BI531488
EST:     TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAG                         GAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC
genomic: TCAAGGCCAACCCGGACTACAAGGGCGTGTGCCACGTGGCGCTGGCGCAGgtgcaggccg ... acccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaatcgcacccgcaccctcaaccgcaccctcaccctcatccgcacccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACCTGCAACGCCGGCGCGTTCGGCCAGTTCGCCACGGGTGTGGGCAACACCG
                            ccctcac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcggccactaacccttgcaccgctcccgcgcccacacccggaccctcaatcgcacccgcaccctcaaccgcaccctcaccctcatccgcacccgcgcagGAGGGCCACTGCAAGCCCGGCGAGGTGCTGTTCGGCACTGACAGCCACACCTGCAACGCCGGCGCGTTCGGCCAGTTCGCCACGGGTGTGGGCAACACCG

- - - -actaacc
- - - - - - - cttgcac
- - - - - - - - - - - - - - - -cccacac
- - - - - - - - - - - - - - - - - - - - - accctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - acccgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccgca