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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcggcctgttgggttttgctagtgaccctcctcgacaccctgtcggtcatgggtatggcgaatgaacttgaaacctacctccgacctcacccgccccaccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATCATCTGGCGCTACAAGCAGCTGAAGAAGATGACGCCCGAGCAGCGCAAGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98385
intron # 12
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|15696377|gb|BI720682.1|BI720682
EST:     AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAG                         ATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
genomic: AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAGgtaagcggcc ... ccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
EST: gi|16432476|gb|BI997702.1|BI997702
EST:     AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAG                         ATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
genomic: AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAGgtaagcggcc ... ccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
EST: gi|161823203|gb|FC108203.1|FC108203
EST:     AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAG                         ATCAAGCGCATTCACGAGTACAAGCGCCAGTACCTGAACGTGCTGTCCATC
genomic: AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAGgtaagcggcc ... ccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
EST: gi|8286637|gb|BE024196.1|BE024196
EST:     AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAG                         ATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC
genomic: AGAAGATCCACGGCGACGACGTCAACCAGAACGCGCTGTTCGACATCCAGgtaagcggcc ... ccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggcgaatgaacttgaaacctacctccgacctcacccgccccaccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATCATCTGGCGCTACAAGCAGCTGAAGAAGATGACGCCCGAGCAGCGCAAGG
                              acctcac  putative branch site (score: 3)
                                    cccgccccaccttc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcggcctgttgggttttgctagtgaccctcctcgacaccctgtcggtcatgggtatggcgaatgaacttgaaacctacctccgacctcacccgccccaccttcaacagATCAAGCGCATTCACGAGTACAAGCGTCAGTACCTGAACGTGCTGTCCATCATCTGGCGCTACAAGCAGCTGAAGAAGATGACGCCCGAGCAGCGCAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG