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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaaatgagctgtgctcgtggggagatggcgttatgggcatcttatcgtgttcttggcgctagcaagccagctcaaacttccgccttccttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGCCAGGGCCTGAACGTCGTCTGGGCCGACCCCGCCAAGCCGTCGACCTACC

Basic information

species Chlamydomonas reinhardtii
transcript EDP05800
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|10126918|gb|BE725622.1|BE725622
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10779819|gb|AV636499.1|AV636499
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10779281|gb|AV635961.1|AV635961
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10781417|gb|AV638097.1|AV638097
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10779045|gb|AV635725.1|AV635725
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|7616243|gb|AW721683.1|AW721683
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|49461733|gb|BP089646.1|BP089646
EST:     CATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: CATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10125774|gb|BE724478.1|BE724478
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10785339|gb|AV642011.1|AV642011
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10781873|gb|AV638553.1|AV638553
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10783268|gb|AV639940.1|AV639940
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10786557|gb|AV643229.1|AV643229
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|49459805|gb|BP087718.1|BP087718
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10780507|gb|AV637187.1|AV637187
EST:     AGCTGCTGAAGAAGGGCCACGAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|49459656|gb|BP087569.1|BP087569
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10784186|gb|AV640858.1|AV640858
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|49460342|gb|BP088255.1|BP088255
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|10779414|gb|AV636094.1|AV636094
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|49462803|gb|BP090716.1|BP090716
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|22069194|gb|BQ818857.1|BQ818857
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
EST: gi|14224646|gb|BG843462.1|BG843462
EST:     AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCG                         GACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC
genomic: AGCTGCTGAAGAAGGGCCACAAGGTCACCATCATGAACGATGGTGACTCGgtaagcaaag ... ttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgtgttcttggcgctagcaagccagctcaaacttccgccttccttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGCCAGGGCCTGAACGTCGTCTGGGCCGACCCCGCCAAGCCGTCGACCTACC
                                 cttccgccttccttgc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaaaatgagctgtgctcgtggggagatggcgttatgggcatcttatcgtgttcttggcgctagcaagccagctcaaacttccgccttccttgcaaacagGACAAGCTCACCAAGAAGAACCCTTACGCCAAGTACTCGGACCTGGAGCGCCAGGGCCTGAACGTCGTCTGGGCCGACCCCGCCAAGCCGTCGACCTACC

caaaaat
- - - - - ctgtgct
- - - - - - - - - - - - - - - - - - - - - - - tcgtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcaaa