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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgggcctctccagcaccccaaaaccgatgcctctttcatgtatctacctaccccaaaacaatactgataatcctcctcctcttctcaatgctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98592
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|6549320|gb|AV395104.1|AV395104
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10792908|gb|AV630274.1|AV630274
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10783839|gb|AV640511.1|AV640511
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10791882|gb|AV629248.1|AV629248
EST:     CATCGTCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10790669|gb|AV628035.1|AV628035
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6550651|gb|AV396435.1|AV396435
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10788096|gb|AV644768.1|AV644768
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10791224|gb|AV628590.1|AV628590
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6549212|gb|AV394996.1|AV394996
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10784419|gb|AV641091.1|AV641091
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10790325|gb|AV627691.1|AV627691
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCT
EST: gi|10789439|gb|AV645168.1|AV645168
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6549080|gb|AV394864.1|AV394864
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10790005|gb|AV627371.1|AV627371
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6550641|gb|AV396425.1|AV396425
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|49466875|gb|BP094788.1|BP094788
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6550712|gb|AV396496.1|AV396496
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10786001|gb|AV642673.1|AV642673
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10783249|gb|AV639921.1|AV639921
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6550894|gb|AV396678.1|AV396678
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6551270|gb|AV397054.1|AV397054
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|6548102|gb|AV393886.1|AV393886
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10788069|gb|AV644741.1|AV644741
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10783750|gb|AV640422.1|AV640422
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
EST: gi|10792422|gb|AV629788.1|AV629788
EST:     CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCC                         GCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT
genomic: CATCGCCAGGCCATGAAGGATTTCATGCGAAACGACGACGTCTACGTTCCgtgagttgac ... ctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctaccccaaaacaatactgataatcctcctcctcttctcaatgctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG
                tactgat  putative branch site (score: 2)
                         tcctcctcctcttctc  putative PPT
         aaaacaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgggcctctccagcaccccaaaaccgatgcctctttcatgtatctacctaccccaaaacaatactgataatcctcctcctcttctcaatgctctacacagGCAATACGACATCAGCCTGGCGGAGGAGCGCGAGCTGGCGCTGCAGCGGCTGCGGCGCATCTGCCGCGCCGGCTTCATTTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - -ccagcac
- - - - - - - - - - aaaccga
- - - - - - - - - - - - - - - - - - catgtat
- - - - - - - - - - - - - - - - - - - - - - tacctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaat