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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCCGGCCAACGACTCGGAGGCTCTGCGCTCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccgggcgacctgcgttgggggcggggcggggcgggagggtcatgtgcccgggcccaatgggaatttcgctgggagggagaggggccacggaggga...

Basic information

species Chlamydomonas reinhardtii
transcript EDP02072
intron # 7
splice site 5'
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|10772550|gb|AV623373.1|AV623373
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|6544442|gb|AV390226.1|AV390226
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|14228932|gb|BG847764.1|BG847764
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|15692808|gb|BI717113.1|BI717113
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|15695185|gb|BI719490.1|BI719490
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|49461909|gb|BP089822.1|BP089822
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|23367697|gb|BU655515.1|BU655515
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAANGGCCTGGN
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGG-
EST: gi|16072685|gb|BI874681.1|BI874681
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|23363461|gb|BU651281.1|BU651281
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|15695448|gb|BI719753.1|BI719753
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|10768527|gb|AV619352.1|AV619352
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|16437590|gb|BM002810.1|BM002810
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|49461921|gb|BP089834.1|BP089834
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|16431544|gb|BI996770.1|BI996770
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|22050064|gb|BQ809049.1|BQ809049
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|49464632|gb|BP092545.1|BP092545
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|23367839|gb|BU655657.1|BU655657
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
EST: gi|49462669|gb|BP090582.1|BP090582
EST:     TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCT                         CTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA
genomic: TCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccggg ... ccttccacagCTACGTGCAGGACTACGACGAGTCTGACCCCAAGACGCACAAGGGCCTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCCGGCCAACGACTCGGAGGCTCTGCGCTCGCCGCTGATGGGCCTGTTCGAGAAGCGCCGCGCGCGCAACTTCTTCCTgtgagccgggcgacctgcgttgggggcggggcggggcgggagggtcatgtgcccgggcccaatgggaatttcgctgggagggagaggggccacggaggga

- - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgggaat