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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggtacggtgcagtaactgctggataaatgcagctgacgttggccgtccttcaagcctggtaaggcgctaaccagtttcctcaacgccgcggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACGGTGGCTTACGCTGCGCTGGTGCCCTCGACCGAGCTGGGAGTAAAGGCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04355
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|10772323|gb|AV623146.1|AV623146
EST:     AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|161801267|gb|FC088452.1|FC088452
EST:     AGCTGCAGGAGGAGACGTCAGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|161821046|gb|FC110511.1|FC110511
EST:     AGCTGCAGGAGGAGACGTCAGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|6545088|gb|AV390872.1|AV390872
EST:     AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|15703550|gb|BI727855.1|BI727855
EST:     AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|15691882|gb|BI716203.1|BI716203
EST:     AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
EST: gi|16432100|gb|BI997326.1|BI997326
EST:     AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAG                         GTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG
genomic: AGCTGCAGGAGGAGACGTCGGTGGACCCCGCGTCCGTGTCCATGACCCAGgtgcgcgggt ... ggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccttcaagcctggtaaggcgctaaccagtttcctcaacgccgcggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACGGTGGCTTACGCTGCGCTGGTGCCCTCGACCGAGCTGGGAGTAAAGGCGG
                    cgctaac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggtacggtgcagtaactgctggataaatgcagctgacgttggccgtccttcaagcctggtaaggcgctaaccagtttcctcaacgccgcggccctgcagGTTGGCGCCTTTGCTGACCCTGGCCGCGACCCCCGCGGCTGGACCGTGACGGTGGCTTACGCTGCGCTGGTGCCCTCGACCGAGCTGGGAGTAAAGGCGG

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