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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caataccgctcctcatcctacgctatggggtctgagcaatgctgcgcagtgtcatccacattgccgcattcctaataaagtatgaatgtaaaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATGGAGGCGGGCGTGGGCGAGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP03845
intron # 6
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|161793853|gb|FC078765.1|FC078765
EST:     GGGATGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAG                         TTCTACCGCGACGGCNAGCTGCTGTGGGAGCACAAGGGCGTCATGCAAATG
genomic: GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAGgtaagcaggg ... aaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATG
EST: gi|15695707|gb|BI720012.1|BI720012
EST:     GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAG                         TTCTACCGCGACGGCAAGCTGCTGTGGGA
genomic: GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAGgtaagcaggg ... aaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGA
EST: gi|49465093|gb|BP093006.1|BP093006
EST:     GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAG                         TTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATG
genomic: GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAGgtaagcaggg ... aaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATG
EST: gi|7686825|gb|AW757473.1|AW757473
EST:     GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAG                         TTCTACCGCGACGGCAAGCTGC
genomic: GGGAAGCGCTGGTGCAGAAGCTGGGGGTCAAGGTGCTGCCCACGCTACAGgtaagcaggg ... aaccccccagTTCTACCGCGACGGCAAGCTGC
EST: gi|49459098|gb|BP087011.1|BP087011
EST:     TCAAGGTGCTGCCCACGCTACAG                         TTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATG
genomic: TCAAGGTGCTGCCCACGCTACAGgtaagcaggg ... aaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagtgtcatccacattgccgcattcctaataaagtatgaatgtaaaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATGGAGGCGGGCGTGGGCGAGG
                        tcctaat  putative branch site (score: 2)
                                               cccccc  putative PPT
                           taataaagtatgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caataccgctcctcatcctacgctatggggtctgagcaatgctgcgcagtgtcatccacattgccgcattcctaataaagtatgaatgtaaaccccccagTTCTACCGCGACGGCAAGCTGCTGTGGGAGCACAAGGGCGTCATGCAGATGGAGGCGGGCGTGGGCGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - -atccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgaat