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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggcgttgctcctggaaccccccttcccctcccctcttctccccctcgcctccccaccccgcctcctgcttccccttccccctcctcccccgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAGGTGATGGAGGTGGGCGCCTTCACGCCCGCCGCCGTGGACCTGTCCAAGT

Basic information

species Chlamydomonas reinhardtii
transcript EDP08123
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|8932854|gb|BE227615.1|BE227615
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|15702797|gb|BI727102.1|BI727102
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|161814103|gb|FC102025.1|FC102025
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTTGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|23367589|gb|BU655407.1|BU655407
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|9458733|gb|BE452386.1|BE452386
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|10780563|gb|AV637243.1|AV637243
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|23362229|gb|BU650049.1|BU650049
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|15367845|gb|BI527271.1|BI527271
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|14230397|gb|BG849213.1|BG849213
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAG
EST: gi|49461355|gb|BP089268.1|BP089268
EST:     AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAG                         GTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCA
genomic: AAGTGTATACACGAGGCGGCAGCGGCGGTGCTACGCTAACGGAGTCGCAGgtgcgcaggc ... cgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgcctccccaccccgcctcctgcttccccttccccctcctcccccgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAGGTGATGGAGGTGGGCGCCTTCACGCCCGCCGCCGTGGACCTGTCCAAGT
       cccaccccgcctcctg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggcgttgctcctggaaccccccttcccctcccctcttctccccctcgcctccccaccccgcctcctgcttccccttccccctcctcccccgcctctcagGTCACGGGCCTGTGCCAGCAGGCCGGCATCGCGGACGCGGTGGTGGCCAAGGTGATGGAGGTGGGCGCCTTCACGCCCGCCGCCGTGGACCTGTCCAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - -aaccccc