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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggcaaccttgtgtggcgccgaaaggcgacccgcgtgcggcaggcttgtcgaccttaaccgacgttgacgcccgaccattatttctctttgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGCACCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98214
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|8828611|gb|BE212341.1|BE212341
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161797192|gb|FC086850.1|FC086850
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|9210129|gb|BE337044.1|BE337044
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|8513658|gb|BE121553.1|BE121553
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|8287586|gb|BE025145.1|BE025145
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161815720|gb|FC103174.1|FC103174
EST:     CTTCGACATCACCGCCGATGGCGGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: CTTCGACATCACCGCCGATGGC-GCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|10777244|gb|AV633924.1|AV633924
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161797645|gb|FC083702.1|FC083702
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|14229744|gb|BG848560.1|BG848560
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|49466444|gb|BP094357.1|BP094357
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|15371674|gb|BI531100.1|BI531100
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATAGAGATGGAG                         CTGTACGCCGACGACATGCCCAAGACCGCGGATAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161797229|gb|FC086861.1|FC086861
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|22059925|gb|BQ813622.1|BQ813622
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|10191227|gb|BE761303.1|BE761303
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161800933|gb|FC084738.1|FC084738
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|14229745|gb|BG848561.1|BG848561
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161807616|gb|FC094621.1|FC094621
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|15371993|gb|BI531419.1|BI531419
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|22050891|gb|BQ809391.1|BQ809391
EST:     TCTTCGACATCTCCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCTCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|9459866|gb|BE452948.1|BE452948
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|10791808|gb|AV629174.1|AV629174
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|161791742|gb|FC078338.1|FC078338
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|16071604|gb|BI873600.1|BI873600
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
EST: gi|23361835|gb|BU649655.1|BU649655
EST:     TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAG                         CTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC
genomic: TCTTCGACATCACCGCCGATGGCGCGCCTGTGGGCCGCATCGAGATGGAGgtgcgtttcg ... tgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtcgaccttaaccgacgttgacgcccgaccattatttctctttgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGCACCG
                               ccattatttctcttt  CT-rich tract
                                 attatttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggcaaccttgtgtggcgccgaaaggcgacccgcgtgcggcaggcttgtcgaccttaaccgacgttgacgcccgaccattatttctctttgcactgcagCTGTACGCCGACGACGTGCCCAAGACCGCGGAGAACTTCCGCGCCCTGTGCACCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - tgtgtgg