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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaacgtggcttcgccggtgtggcatggggctcaggcggcagttgaccgacgcgccaccgtcgcgcgtcacctccctcctgcctccccacatcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATTATTGATGAGAA

Basic information

species Chlamydomonas reinhardtii
transcript EDP05705
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|161817032|gb|FC105457.1|FC105457
EST:     AGGAGCAACTAAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|16437814|gb|BM003034.1|BM003034
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|22063603|gb|BQ815318.1|BQ815318
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGG
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGG
EST: gi|15368325|gb|BI527751.1|BI527751
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|14225963|gb|BG844779.1|BG844779
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|16437276|gb|BM002496.1|BM002496
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCC
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCC
EST: gi|8401114|gb|BE056748.1|BE056748
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCT
EST: gi|15695862|gb|BI720167.1|BI720167
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|23363212|gb|BU651032.1|BU651032
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGTAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|10126813|gb|BE725517.1|BE725517
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|15693748|gb|BI718053.1|BI718053
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATT
EST: gi|10794172|gb|AV631538.1|AV631538
EST:     AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAG                         GTGGACGACCTGCG
genomic: AGGAGCAACTCAAGCCGCAGGAGGAGCGCAACGAGGAGGACCGCTCCAAGgtgcgggggg ... atcactgcagGTGGACGACCTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accgacgcgccaccgtcgcgcgtcacctccctcctgcctccccacatcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATTATTGATGAGAA
 agttgac  putative branch site (score: 4)
                         cctccctcctgcctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaacgtggcttcgccggtgtggcatggggctcaggcggcagttgaccgacgcgccaccgtcgcgcgtcacctccctcctgcctccccacatcactgcagGTGGACGACCTGCGCGGGACGCCCCTGAGTGTGGGCACCCTGGAGGAGATTATTGATGAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT