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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgccattctcaccatcagctgtggtgcacaccggcttcctggtattgctttgcacacgacatgggcacatgttcgttgcctacacgttgacgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCGGTGCCGCGCAACGACCTGCTGTTCGCGGTTCGGCAACCGGGCGCCGCAC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98462
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|161812844|gb|FC095631.1|FC095631
EST:     AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAG                         GAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
genomic: AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAGgtaggccagt ... cgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
EST: gi|14232473|gb|BG851289.1|BG851289
EST:     AAGACCTGGCTGAGGCNGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAG                         GAGAACCTACGCG-ACTTCATGGTGCCCGATCCCT
genomic: AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAGgtaggccagt ... cgccttgcagGAGAAC-TACGCGGACTTCATGGTGCCCGATCCCT
EST: gi|10788812|gb|AV626532.1|AV626532
EST:     AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAG                         GAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
genomic: AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAGgtaggccagt ... cgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
EST: gi|15695620|gb|BI719925.1|BI719925
EST:     AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAG                         GAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
genomic: AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAGgtaggccagt ... cgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
EST: gi|161821274|gb|FC109465.1|FC109465
EST:     AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAG                         GAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG
genomic: AAGACCTGGCTGAGGCGGATGCGGCCAAGGAGAGCGTTCTGGAAGTGCAGgtaggccagt ... cgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttgcacacgacatgggcacatgttcgttgcctacacgttgacgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCGGTGCCGCGCAACGACCTGCTGTTCGCGGTTCGGCAACCGGGCGCCGCAC
                                       cgttgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgccattctcaccatcagctgtggtgcacaccggcttcctggtattgctttgcacacgacatgggcacatgttcgttgcctacacgttgacgccttgcagGAGAACTACGCGGACTTCATGGTGCCCGATCCCTTCCACTTCGTGGTGCCGGTGCCGCGCAACGACCTGCTGTTCGCGGTTCGGCAACCGGGCGCCGCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - attctca
- - - - - - - - - - - -gtgcaca
- - - - - - - - - - - - - - - - - - - - - - - - - -gcacacg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctacac