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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggttggtgccgtgtggcactcgtagcccccggtgcagcaatcgctgcactttccccttcgctcaccgtctttgtttggcgcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04524
intron # 4
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|10785797|gb|AV642469.1|AV642469
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
EST: gi|15692004|gb|BI716309.1|BI716309
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
EST: gi|161798131|gb|FC082667.1|FC082667
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATCATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
EST: gi|161801047|gb|FC083110.1|FC083110
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATCATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
EST: gi|10786302|gb|AV642974.1|AV642974
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
EST: gi|8287117|gb|BE024676.1|BE024676
EST:     GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGG                         GCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC
genomic: GCGAGGCGCTGCGCATCCCCGGCTCGAAGTCCCTCGGGCCTGTGGCGCGGgtgagtggtt ... gcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcaatcgctgcactttccccttcgctcaccgtctttgtttggcgcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG
                        cgctcac  putative branch site (score: 3)
                                   tttgttt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtggttggtgccgtgtggcactcgtagcccccggtgcagcaatcgctgcactttccccttcgctcaccgtctttgtttggcgcacatgcagGCTGTCCGCGCTTCTCAGGATGTGCTGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG