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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcggcggaccgggccgggctatgcatgtaccctccccttccccctgcctatccggagcccatccgaccctcaagcacttgcactgtacgcgaatggccacctgacacgccccatctccatcaagccgccgttacctcgttctcatggacctggtgcaatatcccccccgcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCCGCCAGCCTGGCGCCGCAGCGCACGCGCGTGAACGCCGTGCTGCCGGGCT

Basic information

species Chlamydomonas reinhardtii
transcript EDP09952
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|239841219|gb|GR283076.1|GR283076
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841223|gb|GR283080.1|GR283080
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCC
EST: gi|239841232|gb|GR283089.1|GR283089
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841225|gb|GR283082.1|GR283082
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841222|gb|GR283079.1|GR283079
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCC
EST: gi|239841226|gb|GR283083.1|GR283083
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841230|gb|GR283087.1|GR283087
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841217|gb|GR283074.1|GR283074
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841224|gb|GR283081.1|GR283081
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841229|gb|GR283086.1|GR283086
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|23362511|gb|BU650331.1|BU650331
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841227|gb|GR283084.1|GR283084
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841218|gb|GR283075.1|GR283075
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841228|gb|GR283085.1|GR283085
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841220|gb|GR283077.1|GR283077
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
EST: gi|239841231|gb|GR283088.1|GR283088
EST:     TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAG                         GGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC
genomic: TCATCCACATCTCCAGCACACGGGCGCTCCAGTCCGAGCCAGGCTGCGAGgtgcggcgga ... gcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccgccgttacctcgttctcatggacctggtgcaatatcccccccgcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCCGCCAGCCTGGCGCCGCAGCGCACGCGCGTGAACGCCGTGCTGCCGGGCT
                                   tatcccccccgcccct  CT-rich tract
                                 aatat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcggcggaccgggccgggctatgcatgtaccctccccttccccctgcctatccggagcccatccgaccctcaagcacttgcactgtacgcgaatggccacctgacacgccccatctccatcaagccgccgttacctcgttctcatggacctggtgcaatatcccccccgcccctccagGGCTACGCCGCCGCCAAGGCCGGCCTGCTGGGCCTCACACACGCCCAGGCCGCCAGCCTGGCGCCGCAGCGCACGCGCGTGAACGCCGTGCTGCCGGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC