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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagagactatgttagccgtgacgttgcggccttgcgctcctagcgccccgcccgccctcccgccaacccttgcatgcgccgtgtcctctgctgttgctgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCCGAGCGCGTCGTGCACGCCCGCGGCGCTGCGGCAAAGGGCTTCTTCGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP00871
intron # 2
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|10785653|gb|AV642325.1|AV642325
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|49462387|gb|BP090300.1|BP090300
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6548949|gb|AV394733.1|AV394733
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22067149|gb|BQ817372.1|BQ817372
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10777114|gb|AV633794.1|AV633794
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22068250|gb|BQ818189.1|BQ818189
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|8932860|gb|BE227621.1|BE227621
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10792144|gb|AV629510.1|AV629510
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22060823|gb|BQ813924.1|BQ813924
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22069902|gb|BQ819380.1|BQ819380
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|49468817|gb|BP096678.1|BP096678
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|23361192|gb|BU649012.1|BU649012
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|14240802|gb|BG859618.1|BG859618
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6549728|gb|AV395512.1|AV395512
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6544288|gb|AV390072.1|AV390072
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10771169|gb|AV621992.1|AV621992
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6547218|gb|AV393002.1|AV393002
EST:     ACAACAGCAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|15691958|gb|BI716263.1|BI716263
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22075188|gb|BQ823948.1|BQ823948
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGTTTGAGAAGCTGGCGCATTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10784886|gb|AV641558.1|AV641558
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|49467763|gb|BP095624.1|BP095624
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10775671|gb|AV632351.1|AV632351
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22064859|gb|BQ816064.1|BQ816064
EST:     AACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: AACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22071695|gb|BQ821033.1|BQ821033
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|34985582|gb|CF559499.1|CF559499
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6545451|gb|AV391235.1|AV391235
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6545840|gb|AV391624.1|AV391624
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|14239601|gb|BG858417.1|BG858417
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|10794479|gb|AV631845.1|AV631845
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|6542376|gb|AV388160.1|AV388160
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|34986788|gb|CF560705.1|CF560705
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|14227441|gb|BG846257.1|BG846257
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
EST: gi|22076101|gb|BQ824877.1|BQ824877
EST:     ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAG                         GACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC
genomic: ACAACAACAACTCCATGACAGTGGGGACGCGCGGTCCCATCCTCCTGGAGgtgagagaga ... tgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgccctcccgccaacccttgcatgcgccgtgtcctctgctgttgctgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCCGAGCGCGTCGTGCACGCCCGCGGCGCTGCGGCAAAGGGCTTCTTCGAG
                                          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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagagagactatgttagccgtgacgttgcggccttgcgctcctagcgccccgcccgccctcccgccaacccttgcatgcgccgtgtcctctgctgttgctgacccgcagGACTACCACCTGGTTGAGAAGCTGGCGCAGTTCGACCGGGAGCGCATCCCCGAGCGCGTCGTGCACGCCCGCGGCGCTGCGGCAAAGGGCTTCTTCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG