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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgcgctttcgatgggtcgcggagttccagccccatgggcccggttgctgacttctccctacgtgctgtgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98586
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|49459322|gb|BP087235.1|BP087235
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|10778656|gb|AV635336.1|AV635336
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161823510|gb|FC108510.1|FC108510
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|10126032|gb|BE724736.1|BE724736
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161795111|gb|FC078255.1|FC078255
EST:     CCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: CCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|9459905|gb|BE452968.1|BE452968
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|49469821|gb|BP097682.1|BP097682
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|6551890|gb|AV397674.1|AV397674
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|49469501|gb|BP097362.1|BP097362
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161812620|gb|FC099437.1|FC099437
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161799718|gb|FC085252.1|FC085252
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCCCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|239842030|gb|GR283887.1|GR283887
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|10786678|gb|AV643350.1|AV643350
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|10785226|gb|AV641898.1|AV641898
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161799786|gb|FC083253.1|FC083253
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|9210917|gb|BE337832.1|BE337832
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|49470095|gb|BP097956.1|BP097956
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161813926|gb|FC104552.1|FC104552
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|161820324|gb|FC105889.1|FC105889
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCGGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|22049242|gb|BQ808677.1|BQ808677
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
EST: gi|10127829|gb|BE726533.1|BE726533
EST:     TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCG                         GTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
genomic: TGTCTGTGGACATCCGCCGCGTGGGCCGCTCTCGCATCGTCGTCGAGGCGgtaagtcgcg ... tgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccagccccatgggcccggttgctgacttctccctacgtgctgtgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG
                      tgctgac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcgcgctttcgatgggtcgcggagttccagccccatgggcccggttgctgacttctccctacgtgctgtgccctgtagGTGAAGAAGTCGGTTGGCGACCTGCACAAGGCTGACCTGGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG