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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgccctgcatactggcctgggttcaagcagctgggctcctgacacgcgccggcgcctacttacctagcccggtgccttattgcctcgccccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGACGCCTGCCAGCCCCGCACAGCTACTGCTCATCCGCCGCAAGTTTGACCCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04355
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|10772323|gb|AV623146.1|AV623146
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|161801267|gb|FC088452.1|FC088452
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCCATAATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|161821046|gb|FC110511.1|FC110511
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCCATAATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|15696029|gb|BI720334.1|BI720334
EST:     TCTGCCGCGAAGAAGGATGCTGCTTAGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTAT
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTAT
EST: gi|49463552|gb|BP091465.1|BP091465
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACC
EST: gi|6545088|gb|AV390872.1|AV390872
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|15703550|gb|BI727855.1|BI727855
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|15691882|gb|BI716203.1|BI716203
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
EST: gi|16432100|gb|BI997326.1|BI997326
EST:     TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCA                         GTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC
genomic: TCTGCCGCGAAGAAGGATGCTGCTTCGGCTCCCAAGGGCTACACTTACCAgtaagtcaaa ... cccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgcgccggcgcctacttacctagcccggtgccttattgcctcgccccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGACGCCTGCCAGCCCCGCACAGCTACTGCTCATCCGCCGCAAGTTTGACCCC
             tacttac  putative branch site (score: 1)
                                       cctcgcccc  putative PPT
                                 ttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatgccctgcatactggcctgggttcaagcagctgggctcctgacacgcgccggcgcctacttacctagcccggtgccttattgcctcgccccaccgcagGTGGCCGCGGCCGGCGATGACCGTGGACGCAATTATTGTGTCGCAGCCGACGCCTGCCAGCCCCGCACAGCTACTGCTCATCCGCCGCAAGTTTGACCCC

- - - - gcatact
- - - - - - - - - - - - tcaagca
- - - - - - - - - - - - - - - - - - - - - - cacgcgc