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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtggggctggggctgtgcagaagcggtcgtgtgggcgcggcggcgagcttttgcccatacggtatccaaccatgcaaaactgcctcttgttgcacactaccctgccgcgccactctcgtcccttagaccgcatgcccacgcccgcttacgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCCTGATCATGGGCACCTGGGACGGCGCCAACATTGAGATCGCGGAGGAGAC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98385
intron # 14
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|16432476|gb|BI997702.1|BI997702
EST:     CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|16072431|gb|BI874427.1|BI874427
EST:     CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|161823203|gb|FC108203.1|FC108203
EST:     CGAGACCATCATCCCCGCCGCTGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCCTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|10775834|gb|AV632514.1|AV632514
EST:     CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|49458811|gb|BP086724.1|BP086724
EST:     CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|161794546|gb|FC081954.1|FC081954
EST:     CGAGACCATCATCCCCGCCGCTGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCCTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
EST: gi|239840759|gb|GR282449.1|GR282449
EST:     CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGG                         GCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC
genomic: CGAGACCATCATCCCCGCCGCCGAGCTGTCGCAGCACATCTCCACCGCGGgtgcgtgggg ... cgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccgcgccactctcgtcccttagaccgcatgcccacgcccgcttacgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCCTGATCATGGGCACCTGGGACGGCGCCAACATTGAGATCGCGGAGGAGAC
                                       cgcttac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtggggctggggctgtgcagaagcggtcgtgtgggcgcggcggcgagcttttgcccatacggtatccaaccatgcaaaactgcctcttgttgcacactaccctgccgcgccactctcgtcccttagaccgcatgcccacgcccgcttacgtgtcacagGCACTGAGGCTTCGGGCACGTCCAACATGAAGTTCCAGATGAACGGTTGCCTGATCATGGGCACCTGGGACGGCGCCAACATTGAGATCGCGGAGGAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA