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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgggacccctgcactctccctggtacccccgccacttcgagcgttgcactgtagcttggttgctgagttgtatcgcgtataactactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTCATGCTCATGCTGAAGAGCAAGTCGCTCGGCCTGGCTGCTTACGCGGTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP01096
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|10777756|gb|AV634436.1|AV634436
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|14235090|gb|BG853906.1|BG853906
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|16073069|gb|BI875065.1|BI875065
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|10769292|gb|AV620117.1|AV620117
EST:     GGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: GGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|14231263|gb|BG850079.1|BG850079
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|10775030|gb|AV625853.1|AV625853
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|8287147|gb|BE024706.1|BE024706
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|6545331|gb|AV391115.1|AV391115
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|14241405|gb|BG860221.1|BG860221
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|15696147|gb|BI720452.1|BI720452
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|10127676|gb|BE726380.1|BE726380
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|16430984|gb|BI996210.1|BI996210
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|15372690|gb|BI532116.1|BI532116
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
EST: gi|10779637|gb|AV636317.1|AV636317
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGG
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGG
EST: gi|14231264|gb|BG850080.1|BG850080
EST:     CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGAC                         GTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC
genomic: CCAAGGCGGTGCTGGCGAACCCGCAAGTGCCCGCGGCCGGCTCTCTCGACgtaagcggga ... tactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcgttgcactgtagcttggttgctgagttgtatcgcgtataactactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTCATGCTCATGCTGAAGAGCAAGTCGCTCGGCCTGGCTGCTTACGCGGTGG
                                      gtataac  putative branch site (score: 3)
                                            ctactct  CT-rich tract
                                       tataacta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgggacccctgcactctccctggtacccccgccacttcgagcgttgcactgtagcttggttgctgagttgtatcgcgtataactactctacagGTGAGCCTGTCTGTGAAGAAGGGCGGTGAGTCCTTCAAGCCGCAGCAGGTCATGCTCATGCTGAAGAGCAAGTCGCTCGGCCTGGCTGCTTACGCGGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT