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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcaaggttgccacgtacatttggcgacaagctctgagcacgcacaaggccttgttccgccctgacctcgtcgagcatcggccctttatttcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP01639
intron # 3
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|49466677|gb|BP094590.1|BP094590
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCA
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCA
EST: gi|49467899|gb|BP095760.1|BP095760
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10784603|gb|AV641275.1|AV641275
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10784314|gb|AV640986.1|AV640986
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10782916|gb|AV639588.1|AV639588
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTTGAGAGCCTGG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGG
EST: gi|6547630|gb|AV393414.1|AV393414
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10783188|gb|AV639860.1|AV639860
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10790055|gb|AV627421.1|AV627421
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10789136|gb|AV626856.1|AV626856
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10791276|gb|AV628642.1|AV628642
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10784537|gb|AV641209.1|AV641209
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10792476|gb|AV629842.1|AV629842
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
EST: gi|10790801|gb|AV628167.1|AV628167
EST:     GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAG                         AGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
genomic: GAACGGTGCTGGACACGGCCGACCCCAACTCGTGCACCGCCTTCATGAAGgtgggcgggg ... tcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggccttgttccgccctgacctcgtcgagcatcggccctttatttcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG
              ccctgac  putative branch site (score: 3)
                                    ccctttatttcttccg  putative PPT
                                       tttatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcaaggttgccacgtacatttggcgacaagctctgagcacgcacaaggccttgttccgccctgacctcgtcgagcatcggccctttatttcttccgcagAGCCACCGCTCGCTGGTGGATGGCGTCGTGAGCCTGGCGCGCCGCGTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - acgtaca
- - - - - - - - - - - - - acaagct
- - - - - - - - - - - - - - - - - - - -acgcaca