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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggggcgtggagtctggacggcaactcacagtccgcataattcgactcagatttggtgccatcggtcgagggccggagttctgacgctgtttctccctcccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGATAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP01714
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|10794315|gb|AV631681.1|AV631681
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|15368137|gb|BI527563.1|BI527563
EST:     GGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: GGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|8286689|gb|BE024248.1|BE024248
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|15691777|gb|BI716082.1|BI716082
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|161791844|gb|FC081482.1|FC081482
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTCCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|161802327|gb|FC091592.1|FC091592
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTCCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|10794360|gb|AV631726.1|AV631726
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
EST: gi|15694684|gb|BI718989.1|BI718989
EST:     TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAG                         GTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT
genomic: TGAAGCGCCTGGACCAACTCAAACGGGAGAAGGCGGTGCTTGCCTCGGAGgtggggcgtg ... cccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgccatcggtcgagggccggagttctgacgctgtttctccctcccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGATAAG
                         ttctgac  putative branch site (score: 2)
                               cgctgtttctccctcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggggcgtggagtctggacggcaactcacagtccgcataattcgactcagatttggtgccatcggtcgagggccggagttctgacgctgtttctccctcccgcggcagGTGGCGCAAGAGGAGGAATTCCTGACCAACACCCTGCAGAAGCGGCTGGATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA