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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcgcgctttggttggagatgcttgcgtggaatcgcacacataccacatacccccgtgcctgtgccctctctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTCCTTGAGGACGAGCAGCCTAAGGACCCGGAGCAGACTAAGCAGGACCTTA

Basic information

species Chlamydomonas reinhardtii
transcript EDO99584
intron # 3
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|15702046|gb|BI726351.1|BI726351
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|161803556|gb|FC090520.1|FC090520
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|15693681|gb|BI717986.1|BI717986
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|8576740|gb|BE129377.1|BE129377
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|9210742|gb|BE337657.1|BE337657
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|10777354|gb|AV634034.1|AV634034
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|14228396|gb|BG847212.1|BG847212
EST:     GGTCGGTGGCGTTGTGTNTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: GGTCGGTGGCGTTGTGT-TTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|16438220|gb|BM003440.1|BM003440
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|10126580|gb|BE725284.1|BE725284
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTACTCTTTGCCCCTCAG                         ATCTGCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGTTTT
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|8828368|gb|BE212098.1|BE212098
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|10780475|gb|AV637155.1|AV637155
EST:     TGGTCGGTGGCGTTGTGTTGGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGGCTT
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCC-GCTT
EST: gi|15369711|gb|BI529137.1|BI529137
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|14229598|gb|BG848414.1|BG848414
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCAT-AAGCTGCCCCGCTT
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCC-TGAAGCTGCCCCGCTT
EST: gi|49460696|gb|BP088609.1|BP088609
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|161822228|gb|FC107676.1|FC107676
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
EST: gi|14240185|gb|BG859001.1|BG859001
EST:     TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAG                         ATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC
genomic: TGGTCGGTGGCGTTGTGTTTGGTGCTCTGGGCTTCCTCTTTGCCCCTCAGgtgcgcgcgc ... ctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtggaatcgcacacataccacatacccccgtgcctgtgccctctctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTCCTTGAGGACGAGCAGCCTAAGGACCCGGAGCAGACTAAGCAGGACCTTA
                                 cctgtgccctctct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcgcgctttggttggagatgcttgcgtggaatcgcacacataccacatacccccgtgcctgtgccctctctacccacagATCTCCAAGGCGCTCCTAGGCGACGACCAGCGCCTGAAGCTGCCCCGCTTCCTTGAGGACGAGCAGCCTAAGGACCCGGAGCAGACTAAGCAGGACCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG