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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgttaacaccgtctcgccacgccccacgccatgttctccaacgccacccttccccctcaaacccttctcccctcgcccctatttcccaaaacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAGCGCATGAAGAAGAGCTGGAAGCGCATGATCACAAAGGTGACCTTCGTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05281
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|15698076|gb|BI722381.1|BI722381
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|6543378|gb|AV389162.1|AV389162
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|10786946|gb|AV643618.1|AV643618
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGC
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGC
EST: gi|22074959|gb|BQ823735.1|BQ823735
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|10778393|gb|AV635073.1|AV635073
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|10788677|gb|AV626397.1|AV626397
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|6541479|gb|AV387263.1|AV387263
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|6541519|gb|AV387303.1|AV387303
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|6541845|gb|AV387629.1|AV387629
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|10773494|gb|AV624317.1|AV624317
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
EST: gi|7687776|gb|AW758422.1|AW758422
EST:     AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAG                         GTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG
genomic: AGCAGAAGCGGAAGGAGAAGGCGGGCAAGTGGGAGGTGCCTCTGCCGCAGgtgagaagac ... aacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacccttccccctcaaacccttctcccctcgcccctatttcccaaaacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAGCGCATGAAGAAGAGCTGGAAGCGCATGATCACAAAGGTGACCTTCGTGG
                                   tattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgttaacaccgtctcgccacgccccacgccatgttctccaacgccacccttccccctcaaacccttctcccctcgcccctatttcccaaaacctcacagGTGCGGCCCATCGCCGAGGACGAGATGTTCAAGGTGATGAAGAGCGGCAAGCGCATGAAGAAGAGCTGGAAGCGCATGATCACAAAGGTGACCTTCGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - acaccgt
- - - - - - - - - cacgccc
- - - - - - - - - - - - - - - - - - ctccaac