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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcctttgtactggggttgcggtgacaaaaccaggcaagcgccccgattcgcgctgagcaccacaggtgtagcatgcgctaaagcacttggctggggtgagcaggtcgcgacctttctgacacgtgacccaaacccgctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTACGAGGACGTGGCCAGCGGCAACGAGATCAAGTCGGTGGTGCAGGCCGTGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP06428
intron # 5
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|10768289|gb|AV619114.1|AV619114
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|8287449|gb|BE025008.1|BE025008
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10772882|gb|AV623705.1|AV623705
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|22064679|gb|BQ815960.1|BQ815960
EST:     ACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCT-GTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: ACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|15372787|gb|BI532213.1|BI532213
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10769430|gb|AV620255.1|AV620255
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|22071957|gb|BQ821295.1|BQ821295
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|161799550|gb|FC087242.1|FC087242
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10788599|gb|AV626319.1|AV626319
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10770932|gb|AV621755.1|AV621755
EST:     AACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: AACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|6542619|gb|AV388403.1|AV388403
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|16071655|gb|BI873651.1|BI873651
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10776180|gb|AV632860.1|AV632860
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|15695715|gb|BI720020.1|BI720020
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|15702302|gb|BI726607.1|BI726607
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10783004|gb|AV639676.1|AV639676
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|10777725|gb|AV634405.1|AV634405
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|161813009|gb|FC094834.1|FC094834
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|49463395|gb|BP091308.1|BP091308
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|15370924|gb|BI530350.1|BI530350
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|16073375|gb|BI875371.1|BI875371
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|161820670|gb|FC106157.1|FC106157
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
EST: gi|49463359|gb|BP091272.1|BP091272
EST:     TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAG                         GCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC
genomic: TGTCCGTCTACAACTCGTTCAACGAGGCTGACAAGAAGATCTTCGAGCAGgtgcgccttt ... gctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggggtgagcaggtcgcgacctttctgacacgtgacccaaacccgctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTACGAGGACGTGGCCAGCGGCAACGAGATCAAGTCGGTGGTGCAGGCCGTGC
                       ttctgac  putative branch site (score: 2)
                                          cccgctttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcctttgtactggggttgcggtgacaaaaccaggcaagcgccccgattcgcgctgagcaccacaggtgtagcatgcgctaaagcacttggctggggtgagcaggtcgcgacctttctgacacgtgacccaaacccgctttcgcagGCCTACTCTGCCTCGTACAAGCCCGCCCTGGACATCTGCTTTGAGATCTACGAGGACGTGGCCAGCGGCAACGAGATCAAGTCGGTGGTGCAGGCCGTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA