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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggttgtttggttctatccgcaagcattgctcgcgagttctcatattctgacgctatttggctgatgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
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|10781349|gb|AV638029.1|AV638029
EST:     TTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: TTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10126110|gb|BE724814.1|BE724814
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|49463440|gb|BP091353.1|BP091353
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10126090|gb|BE724794.1|BE724794
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|6550255|gb|AV396039.1|AV396039
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10788776|gb|AV626496.1|AV626496
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10126692|gb|BE725412.1|BE725412
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|6543230|gb|AV389014.1|AV389014
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10784593|gb|AV641265.1|AV641265
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|15698243|gb|BI722548.1|BI722548
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10792084|gb|AV629450.1|AV629450
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10793828|gb|AV631194.1|AV631194
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|49469449|gb|BP097310.1|BP097310
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|8286884|gb|BE024443.1|BE024443
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10769315|gb|AV620140.1|AV620140
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10792385|gb|AV629751.1|AV629751
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10793783|gb|AV631149.1|AV631149
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|49470468|gb|BP098329.1|BP098329
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|49460106|gb|BP088019.1|BP088019
EST:     TTCGCAGC-TGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: TTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10771492|gb|AV622315.1|AV622315
EST:     C-GTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
EST: gi|10792252|gb|AV629618.1|AV629618
EST:     CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCG                         GTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
genomic: CTGTGCAGGGTATTTCGCAGCTTGCGCGTGCGCTGTCGTCCGCGCACGCGgtgggttgtt ... tgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagcattgctcgcgagttctcatattctgacgctatttggctgatgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG
                    tcatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggttgtttggttctatccgcaagcattgctcgcgagttctcatattctgacgctatttggctgatgccttgcagGTCGCGGGCCAGCGCTGCTTCGCTGCGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT