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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtgtctgtaggtttacgtgtgtgccacagccggctgctctttactggttagcagcaacacgattgtgtccgcatgctgccatcgctgatgccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCGGACGGCGACGGCTTCATCACAGTTGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04474
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|15367980|gb|BI527406.1|BI527406
EST:     TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         GAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
EST: gi|161815169|gb|FC105314.1|FC105314
EST:     TGCGCAACATTGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         GAGTT-GTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
EST: gi|161811907|gb|FC096097.1|FC096097
EST:     TGCGCAACATTGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         GAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
EST: gi|14229438|gb|BG848254.1|BG848254
EST:     TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         GAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
EST: gi|15701172|gb|BI725477.1|BI725477
EST:     TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         -AGTTTTGTGGAGCT
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTT-GTGGAGCT
EST: gi|161821457|gb|FC109752.1|FC109752
EST:     TGCGCAACATTGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAG                         GAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG
genomic: TGCGCAACATCGTCACCGCTGCGGCAAATGCGCCCTGGAAGAGCGTGGAGgtgcgcgagg ... gccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttagcagcaacacgattgtgtccgcatgctgccatcgctgatgccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCGGACGGCGACGGCTTCATCACAGTTGAG
                                      cgctgat  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgtgtctgtaggtttacgtgtgtgccacagccggctgctctttactggttagcagcaacacgattgtgtccgcatgctgccatcgctgatgccgccacagGAGTTTGTGGAGCTGACGCCGGTCAAGATCTGCTTTGACCTGGTTGACGCGGACGGCGACGGCTTCATCACAGTTGAG

- tgtctgt
- - - - - - - - - tgtgtgc
- - - - - - - - - - - - -cacagcc
- - - - - - - - - - - - - - - - - - - - - - - - - agcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtcc