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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatattttagtccatcgcgaccaccgagggtgctgccgcgagcacgtggtcgaaaccctcaattttgctggcggcatgtctgtacgcctcccctgccttctgcggccccttcaccccgctgcgccgcccctaatccgagctgcatgcgctactttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCCATGACCCCGGAGCTGGCGGAGCAGATTCTGGCCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO96236
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|10784272|gb|AV640944.1|AV640944
EST:     GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT                         GCCACGATCATGAC
genomic: GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTgtgagtatat ... ctttcaacagGCCACGATCATGAC
EST: gi|10787146|gb|AV643818.1|AV643818
EST:     GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT                         GCCACGATCATGACGGACCCCGGCATGGCGGACCGAACCTACGTTGGGCCC
genomic: GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTgtgagtatat ... ctttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCC
EST: gi|10784247|gb|AV640919.1|AV640919
EST:     GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT                         GCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCC
genomic: GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTgtgagtatat ... ctttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCC
EST: gi|49467137|gb|BP095050.1|BP095050
EST:     GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT                         GCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCC
genomic: GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTgtgagtatat ... ctttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCC
EST: gi|49470671|gb|BP098532.1|BP098532
EST:     GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT                         GCCACGATCATGACGGACCCCGGCATGGCGGACCGCA
genomic: GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTgtgagtatat ... ctttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccttcaccccgctgcgccgcccctaatccgagctgcatgcgctactttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCCATGACCCCGGAGCTGGCGGAGCAGATTCTGGCCAAG
                     ccctaat  putative branch site (score: 3)
                                          ctactttc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtatattttagtccatcgcgaccaccgagggtgctgccgcgagcacgtggtcgaaaccctcaattttgctggcggcatgtctgtacgcctcccctgccttctgcggccccttcaccccgctgcgccgcccctaatccgagctgcatgcgctactttcaacagGCCACGATCATGACGGACCCCGGCATGGCGGACCGCACCTACGTTGGGCCCATGACCCCGGAGCTGGCGGAGCAGATTCTGGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT