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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcggaatggaacccagaccttgcgcaaacgtgcagcacgtcacgcacattgccaaccagtgaatttagttatagtgccgtggcggcatgttgagcggaagccctccgagagtcgcagttggctctaacgcccactccaccaactatctccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAACGGCGATGTTGTCAAGAT

Basic information

species Chlamydomonas reinhardtii
transcript EDO98981
intron # 4
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|161808568|gb|FC094884.1|FC094884
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCTACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|8514103|gb|BE121998.1|BE121998
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|6546929|gb|AV392713.1|AV392713
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14242417|gb|BG861233.1|BG861233
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14237056|gb|BG855872.1|BG855872
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|161797931|gb|FC087420.1|FC087420
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCTACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10794296|gb|AV631662.1|AV631662
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14238089|gb|BG856905.1|BG856905
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|15370986|gb|BI530412.1|BI530412
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|22053864|gb|BQ811001.1|BQ811001
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10780917|gb|AV637597.1|AV637597
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14240342|gb|BG859158.1|BG859158
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|15369196|gb|BI528622.1|BI528622
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10787302|gb|AV643974.1|AV643974
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|22076196|gb|BQ824972.1|BQ824972
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14242051|gb|BG860867.1|BG860867
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10791112|gb|AV628478.1|AV628478
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|16431135|gb|BI996361.1|BI996361
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|15370984|gb|BI530410.1|BI530410
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|22071303|gb|BQ820641.1|BQ820641
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10773522|gb|AV624345.1|AV624345
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|161795972|gb|FC085317.1|FC085317
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCTACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|6544166|gb|AV389950.1|AV389950
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10790999|gb|AV628365.1|AV628365
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10784987|gb|AV641659.1|AV641659
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|7687062|gb|AW757710.1|AW757710
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGAACTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|10779996|gb|AV636676.1|AV636676
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14240161|gb|BG858977.1|BG858977
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|15367764|gb|BI527190.1|BI527190
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGGGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|6545280|gb|AV391064.1|AV391064
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|6545353|gb|AV391137.1|AV391137
EST:     AACGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|22071304|gb|BQ820642.1|BQ820642
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
EST: gi|14240115|gb|BG858931.1|BG858931
EST:     AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAG                         CATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA
genomic: AAGGAGATCGAGAAGGGCGTGGCCTTCCCGACCTGCGTCTCTGCCAACAGgtgcggaatg ... ccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgagagtcgcagttggctctaacgcccactccaccaactatctccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAACGGCGATGTTGTCAAGAT
                  ctctaac  putative branch site (score: 2)
                                          tctccactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcggaatggaacccagaccttgcgcaaacgtgcagcacgtcacgcacattgccaaccagtgaatttagttatagtgccgtggcggcatgttgagcggaagccctccgagagtcgcagttggctctaacgcccactccaccaactatctccacttgcagCATTGTTGGCCACTTCTCGCCCAACTCGGAGGATGCCACCGCTCTGAAGAACGGCGATGTTGTCAAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC