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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgcgccgcctagctaggtgttgacaaagctgcacatgcggccaacgggtggtggcctaccgtgtgcgcgagactccacacctgaattgctgatggctgacctgcattgtcgcaatgcttacgccgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGCGGCATTGATGCCACCGACCAGCTTGAGA

Basic information

species Chlamydomonas reinhardtii
transcript EDO96963
intron # 5
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|15697421|gb|BI721726.1|BI721726
EST:     CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGG                         GGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
genomic: CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGGgtaggtgcgc ... cgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
EST: gi|10771654|gb|AV622477.1|AV622477
EST:     CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGG                         GGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
genomic: CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGGgtaggtgcgc ... cgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
EST: gi|15370065|gb|BI529491.1|BI529491
EST:     CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGG                         GGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
genomic: CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGGgtaggtgcgc ... cgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
EST: gi|9028046|gb|BE238086.1|BE238086
EST:     CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGG                         GGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC
genomic: CCATCTACGACTACAAGCGCCTCACCGTCTCTGAGCACGGTCGCGTCAGGgtaggtgcgc ... cgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgaattgctgatggctgacctgcattgtcgcaatgcttacgccgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGCGGCATTGATGCCACCGACCAGCTTGAGA
                                    tgcttac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtgcgccgcctagctaggtgttgacaaagctgcacatgcggccaacgggtggtggcctaccgtgtgcgcgagactccacacctgaattgctgatggctgacctgcattgtcgcaatgcttacgccgcgtaacagGGTCGCTACCAGATGAAGGCCGAGATCTACAAGCGCGGACCCATCAGCTGCGGCATTGATGCCACCGACCAGCTTGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC