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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgttggccaactctcgaccgctcctagcagcatcacagcacactacctggcctacagttgtcctcctgactttttcgaatgctttcactgctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04786
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|16071352|gb|BI873348.1|BI873348
EST:     CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
EST: gi|23364905|gb|BU652725.1|BU652725
EST:     CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
EST: gi|16071428|gb|BI873424.1|BI873424
EST:     CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
EST: gi|22072895|gb|BQ822249.1|BQ822249
EST:     CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
EST: gi|161793914|gb|FC079827.1|FC079827
EST:     GCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTCAAGGCCAGCAGTGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: GCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
EST: gi|15372492|gb|BI531918.1|BI531918
EST:     CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGAT                         TCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA
genomic: CGTGGGACAGATTATTGGCGAGGTGCTGCGGCAGCTGGATGAGGAGCGATgtgagtggcc ... gctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctggcctacagttgtcctcctgactttttcgaatgctttcactgctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAAAG
                   tcctgac  putative branch site (score: 2)
                        acttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgttggccaactctcgaccgctcctagcagcatcacagcacactacctggcctacagttgtcctcctgactttttcgaatgctttcactgctcgcgcagTCATTGTTAAGGCCAGCAGCGGGCCACGCTACGTGGTGGGCGTCCGGACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - -aactctc
- - - - - - - - - - - - - agcagca
- - - - - - - - - - - - - - - - - - -agcacac
- - - - - - - - - - - - - - - - - - - - - - - - - gcctaca