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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcttccgcatgacaccacaaacaggatgctctccatattgcgcagactccgatgagagctaggtaaagttgctgttaagggtgtgaacgctcgaggctgaggcggtgtgctgggctgcggcgcggatttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAGGCGTTCCAGCAAATCCTGACGGAGATCTACCACATCGTCAGCAAGAAGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04353
intron # 5
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|161804362|gb|FC089704.1|FC089704
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|9459748|gb|BE452889.1|BE452889
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|161815543|gb|FC101788.1|FC101788
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|161798278|gb|FC083487.1|FC083487
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|23363628|gb|BU651448.1|BU651448
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|9459215|gb|BE452496.1|BE452496
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACANACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|161821621|gb|FC108746.1|FC108746
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|9441236|gb|BE441840.1|BE441840
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAA
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|23359663|gb|BU647483.1|BU647483
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|16071620|gb|BI873616.1|BI873616
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|15701542|gb|BI725847.1|BI725847
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|10772153|gb|AV622976.1|AV622976
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
EST: gi|16073328|gb|BI875324.1|BI875324
EST:     ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAG                         GGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG
genomic: ACCTGCGTGACGTGCAGACGGAGGTGGCACAGGCTTTCTGCGAGCGCGAGgtgagcttcc ... ttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaacgctcgaggctgaggcggtgtgctgggctgcggcgcggatttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAGGCGTTCCAGCAAATCCTGACGGAGATCTACCACATCGTCAGCAAGAAGG
                                            tttgctc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcttccgcatgacaccacaaacaggatgctctccatattgcgcagactccgatgagagctaggtaaagttgctgttaagggtgtgaacgctcgaggctgaggcggtgtgctgggctgcggcgcggatttgctcacagGGGCTGTCGTTCATTGAGACGTCGGCGCTGGAGTCCACAAACGTGGAGAAGGCGTTCCAGCAAATCCTGACGGAGATCTACCACATCGTCAGCAAGAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG