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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcggcaacctagagcgcgagatgcagccccggaacgatcgctggggcctgtcggcgatgcgagcacacgtgtgccgaaacgaggcgcccagttacatgcttaaatataacaccagaagatttacgataaccatgctgcttgccatgcccctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGTCGCTCTATTTGGAGAGAGGGAGCTAGCATGGGAGCGGTCGCGGAGGCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06388
intron # 1
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|22070810|gb|BQ820148.1|BQ820148
EST:     CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
EST: gi|10126724|gb|BE725300.1|BE725300
EST:     CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
EST: gi|22070809|gb|BQ820147.1|BQ820147
EST:     CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
EST: gi|49465368|gb|BP093281.1|BP093281
EST:     CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
EST: gi|10126583|gb|BE725303.1|BE725303
EST:     CGTTTACTTCCGCTCGACCCCTGTTTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
EST: gi|22070808|gb|BQ820146.1|BQ820146
EST:     CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGA                         CGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT
genomic: CGTCTACTTCCGCTCGACCCCTGTCTCAGATGGAAAGCAGGGCGTTGCGAgtaagtcggc ... ctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataacaccagaagatttacgataaccatgctgcttgccatgcccctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGTCGCTCTATTTGGAGAGAGGGAGCTAGCATGGGAGCGGTCGCGGAGGCTG
                   cgataac  putative branch site (score: 3)
                                          cccctgctt  putative PPT
           aagattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcggcaacctagagcgcgagatgcagccccggaacgatcgctggggcctgtcggcgatgcgagcacacgtgtgccgaaacgaggcgcccagttacatgcttaaatataacaccagaagatttacgataaccatgctgcttgccatgcccctgcttgcagCGCTCCTTGAGACGACGGGCATGCCGAAGCAGACGCCGTCCTCTTAAACGTCGCTCTATTTGGAGAGAGGGAGCTAGCATGGGAGCGGTCGCGGAGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT