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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCCCCAATTCGACCCCGAGTCCGAGGGGCCAGAGCTGCCGACAAAGGCGGATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtgaggacaggggcagggggcaggacacgcgcggcgcctgacacatgaaacgtggacgcctagcaggcatcggtagctagctcacatcacggctgcatcacacttgcaccacatgctttgtcgcactcgttttcctacgcggttgccgaaacccggccgcaccctccgctgttcaccgttctcgcttgcgcag

Basic information

species Chlamydomonas reinhardtii
transcript EDP03103
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP03103 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: Vv07s0031g00030.t01 (Vitis vinifera), 5'ss of exon 1
-CCCCCCAATTCGACCCCGAGTCCGAGGGGCCAGAGCTGCCGACAAAGGCGGATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtgaggacaggggcagggggcaggacacgcgcggcgcctgacacatgaaacgtggacgcctagcaggcatcggtagctagctcacatcacggctgc-atcacacttgcaccacatgctttgtcgcactcgttttcctacgcggttgccgaaacccggccgcaccctccgctgttcaccgttctcgcttgcgcag
 |||    || | |   |  ||  || || ||   ||| |||||   ||    ||| || |||||||| |||||||| || || ||||||||||| |||||||||||             ||      |    || |||   |  |||| |||     | |  | |||     |  |   |   | ||     | |    |   |||||| ||| ||                                                                                    
ACCCGGAGATCCAAGAACTCGTT-GACGGACCCACGCTTCCGACTCGGGGATCTGACGAATTCCGGCCGTTCGTGCGCCGCCTCCCGGAGTTCAAGTTCTGgtgcgt-------------caactattatattactcgcattgtttgac-catttctagggttcccctttttcgtcttaat--ttggcctgatttatacatattatcaca-ttgaacg-----------------------------------------------------------------------------------
















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|15700573|gb|BI724878.1|BI724878
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
EST: gi|15695818|gb|BI720123.1|BI720123
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
EST: gi|10779376|gb|AV636056.1|AV636056
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGA
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGA
EST: gi|15700515|gb|BI724804.1|BI724804
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
EST: gi|22072403|gb|BQ821741.1|BQ821741
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
EST: gi|161792248|gb|FC080332.1|FC080332
EST:     GATGAGGAGTTCCGGCCGTTCGTGCGGCGGCTGCCGGAGTTCAAGTTCTG                         GTACGCGTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
EST: gi|15700640|gb|BI724945.1|BI724945
EST:     GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTG                         GTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG
genomic: GATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtga ... gcttgcgcagGTACGCCTCGATCAAGTCCGTCTTGATCGGGACGGCCATGACCTTCTTTAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCCCCAATTCGACCCCGAGTCCGAGGGGCCAGAGCTGCCGACAAAGGCGGATGAGGAGTTCCGGCCATTCGTGCGGCGGCTGCCGGAGTTCAAATTCTGgtgcgtgtgaggacaggggcagggggcaggacacgcgcggcgcctgacacatgaaacgtggacgcctagcaggcatcggtagctagctcacatcacggctgcatcacacttgcaccacatgctttgtcgcactcgttttcctacgcggttgccgaaacccggccgcaccctccgctgttcaccgttctcgcttgcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG