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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacatccatcacctgctgttgctacggcagtacacgtgagcagcagcgccaggctcacctgccccaccacctgtcccgcacctcccgccctcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCCGTCGCGGCTGTCCGCGCCGGTGGACGAGTCGGCGCAGACGGACCGCGAC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04327
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|15367686|gb|BI527112.1|BI527112
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAG
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAG
EST: gi|15371461|gb|BI530887.1|BI530887
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTG
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTG
EST: gi|8576734|gb|BE129371.1|BE129371
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCC
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCC
EST: gi|14232668|gb|BG851484.1|BG851484
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCC
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCC
EST: gi|15372911|gb|BI532337.1|BI532337
EST:     GAAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGC
genomic: GA-GGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGC
EST: gi|15697286|gb|BI721591.1|BI721591
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACC
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACC
EST: gi|14239028|gb|BG857844.1|BG857844
EST:     GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCG                         CGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAGGATGCC
genomic: GAGGGTGTCAAGGACCCCGTCTATATCTACGGCAACCGgtgagcgcca ... tcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgccaggctcacctgccccaccacctgtcccgcacctcccgccctcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCCGTCGCGGCTGTCCGCGCCGGTGGACGAGTCGGCGCAGACGGACCGCGAC
      ggctcac  putative branch site (score: 3)
                                   cctcccgccctcatc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacatccatcacctgctgttgctacggcagtacacgtgagcagcagcgccaggctcacctgccccaccacctgtcccgcacctcccgccctcatcatcagCGCGGCTCTGGATCTGTTCGAGAAGAGCTGGGACGACCTGCTGAAGATGCCGTCGCGGCTGTCCGCGCCGGTGGACGAGTCGGCGCAGACGGACCGCGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
-acatcca
- - - - -cacctgc
- - - - - - - - tgttgct
- - - - - - - - - - - - - - - -acacgtg
- - - - - - - - - - - - - - - - - - - agcagca
- - - - - - - - - - - - - - - - - - - - - - - - - aggctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaccac