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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcgactgcagagctagcgggctctccctggcgaaaccccttgcacccctcctatgggctgggtatgaattgctcacacggctatttgggttgacgcaatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTGAAGAAGGCCGCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06359
intron # 3
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|9460047|gb|BE453037.1|BE453037
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|22061479|gb|BQ814276.1|BQ814276
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|14228058|gb|BG846874.1|BG846874
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTACCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|10776277|gb|AV632957.1|AV632957
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|14242515|gb|BG861331.1|BG861331
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|14232323|gb|BG851139.1|BG851139
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|22076132|gb|BQ824908.1|BQ824908
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|15703713|gb|BI728018.1|BI728018
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|16072714|gb|BI874710.1|BI874710
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|14228059|gb|BG846875.1|BG846875
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|15373308|gb|BI532734.1|BI532734
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|16436205|gb|BM001425.1|BM001425
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|10776269|gb|AV632949.1|AV632949
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|6544356|gb|AV390140.1|AV390140
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|15369242|gb|BI528668.1|BI528668
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
EST: gi|14232134|gb|BG850950.1|BG850950
EST:     CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAG                         GACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG
genomic: CCTCCAAGATGATTGGTGACATTATTCCCGTGGAGATTACCGTCTACGAGgtgcgcgact ... caatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgggctgggtatgaattgctcacacggctatttgggttgacgcaatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTGAAGAAGGCCGCTG
            tatgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcgactgcagagctagcgggctctccctggcgaaaccccttgcacccctcctatgggctgggtatgaattgctcacacggctatttgggttgacgcaatctacagGACCGCTCGTTCACCTTCGTCCTGAAGACCTCCCCCGCCTCCATCCTCCTGAAGAAGGCCGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG