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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatcgcgggacatgcatacgggaatttcttcatttgaagacctcgtcaagcagggttcgtgctcacatcgtgctctcattcgctgcatcgttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCTTTCTCGGAGTCTGCCAAGGCTGCCATTGAGGCTGCCGGCGGCAAGGCCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO99032
intron # 4
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|16437899|gb|BM003119.1|BM003119
EST:     AGGAGAAGGTGAAGAGCATTAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|6544744|gb|AV390528.1|AV390528
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|9441045|gb|BE441541.1|BE441541
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|10776288|gb|AV632968.1|AV632968
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGC
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGC
EST: gi|10778749|gb|AV635429.1|AV635429
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTG
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTG
EST: gi|161812417|gb|FC098571.1|FC098571
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|161790525|gb|FC080008.1|FC080008
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|9460375|gb|BE453200.1|BE453200
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|16073310|gb|BI875306.1|BI875306
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTG
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTG
EST: gi|8513980|gb|BE121875.1|BE121875
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|10778737|gb|AV635417.1|AV635417
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|22076293|gb|BQ825069.1|BQ825069
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|9210716|gb|BE337631.1|BE337631
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GGGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|10781474|gb|AV638154.1|AV638154
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|9028139|gb|BE238179.1|BE238179
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCT
EST: gi|22072323|gb|BQ821661.1|BQ821661
EST:     AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAG                         GTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGC
genomic: AGGAGAAGGTGAAGAGCATCAGCGGCCGCGATGCCTCCCTACCCCTGAAGgtaagcgtac ... gttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcaagcagggttcgtgctcacatcgtgctctcattcgctgcatcgttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCTTTCTCGGAGTCTGCCAAGGCTGCCATTGAGGCTGCCGGCGGCAAGGCCG
               tgctcac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggatcgcgggacatgcatacgggaatttcttcatttgaagacctcgtcaagcagggttcgtgctcacatcgtgctctcattcgctgcatcgttgcatcagGTGCTGGGCACTGGCAGCCTGAGCAAGTCGCTGAACGTGCACGCCACCGCTTTCTCGGAGTCTGCCAAGGCTGCCATTGAGGCTGCCGGCGGCAAGGCCG

- - - - - - atgcata
- - - - - - - - - - - - - - - - - - - - - - - tcaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcaca