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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtaatcgaaccacgctcaacagtagcactgctatcggcgcgcggggcacgtgttgataaacacacgggggagcgtgtccaagcctacagtaaacatttagtgcgctgccttgcacacagttgcacgtgcctccctgcctcactgggcgcccccccccccctcccccctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGGAAGGTCGAGTACAAGAACTGCTGGAAGGGAATCGGCTGCCCGGTCAAGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04436
intron # 2
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|49468058|gb|BP095919.1|BP095919
EST:     GTTCTTCCANGTTCT-GGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCA-GTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|49468365|gb|BP096226.1|BP096226
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|10785423|gb|AV642095.1|AV642095
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|49468830|gb|BP096691.1|BP096691
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|14227718|gb|BG846534.1|BG846534
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|15700841|gb|BI725146.1|BI725146
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|15700843|gb|BI725148.1|BI725148
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|10787575|gb|AV644247.1|AV644247
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|15700842|gb|BI725147.1|BI725147
EST:     GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
EST: gi|10783422|gb|AV640094.1|AV640094
EST:     TCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG                         TTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG
genomic: TCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATGgtgcgtaatc ... ctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacgtgcctccctgcctcactgggcgcccccccccccctcccccctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGGAAGGTCGAGTACAAGAACTGCTGGAAGGGAATCGGCTGCCCGGTCAAGC
              gcctcac  putative branch site (score: 3)
               cctcactgggcgcccc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtaatcgaaccacgctcaacagtagcactgctatcggcgcgcggggcacgtgttgataaacacacgggggagcgtgtccaagcctacagtaaacatttagtgcgctgccttgcacacagttgcacgtgcctccctgcctcactgggcgcccccccccccctcccccctcctcgcagTTCTGCGAGGCCTACTTCGTCTTCGCCGTCGGTAACCTGTCAGCGCTGTGGAAGGTCGAGTACAAGAACTGCTGGAAGGGAATCGGCTGCCCGGTCAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG