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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggaacgagttcccccatagtcgtctgcatccttgattgtgcggtggacgctgacctcgtggtgctttgcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTGGTGCTTACCGGGCTGAGCGCGAGGGCGCCTACCAGAAGAAGATTGCCGA

Basic information

species Chlamydomonas reinhardtii
transcript EDO98563
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|49470999|gb|BP098860.1|BP098860
EST:     GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGG                         CTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG
genomic: GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGGgtgggaacga ... gcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG
EST: gi|161820768|gb|FC106203.1|FC106203
EST:     GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGG                         CTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAGGAGATTG
genomic: GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGGgtgggaacga ... gcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG
EST: gi|7616044|gb|AW721484.1|AW721484
EST:     GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGG                         CTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTTAGGCCGAGAAAGAGATTG
genomic: GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGGgtgggaacga ... gcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG
EST: gi|239841300|gb|GR283157.1|GR283157
EST:     GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGG                         CTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG
genomic: GCTTGCAGCGGAGGCTGAGGCCCAGCGCATTGTCGGCGACGCTCGCAAGGgtgggaacga ... gcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgcatccttgattgtgcggtggacgctgacctcgtggtgctttgcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTGGTGCTTACCGGGCTGAGCGCGAGGGCGCCTACCAGAAGAAGATTGCCGA
                         cgctgac  putative branch site (score: 3)
                                         ctttgcct  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggaacgagttcccccatagtcgtctgcatccttgattgtgcggtggacgctgacctcgtggtgctttgcctgtgcagCTAAGGCCGACCGCCTGCGCCAGGCTAAGGCTGAGGCCGAGAAAGAGATTGGTGCTTACCGGGCTGAGCGCGAGGGCGCCTACCAGAAGAAGATTGCCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG