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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcggaggctggagaagctgctaggcgttggggtctgggaggcgctctgggcattctacgtgaacagatatgtcgttgcaaacccgttctgacacacgaactgcatctgcgcctgtgtccgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCAGCGGCAAGTGGACGATGATGGCGACATGACTTCAGGGCGCTGACGCCAA

Basic information

species Chlamydomonas reinhardtii
transcript EDO98400
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|10771566|gb|AV622389.1|AV622389
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|7426736|gb|AW660909.1|AW660909
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10768355|gb|AV619180.1|AV619180
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10768984|gb|AV619809.1|AV619809
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACA
EST: gi|10770345|gb|AV621170.1|AV621170
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|7413398|gb|AW652152.1|AW652152
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10771975|gb|AV622798.1|AV622798
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10778206|gb|AV634886.1|AV634886
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|7593268|gb|AW707407.1|AW707407
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10773286|gb|AV624109.1|AV624109
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCG
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCG
EST: gi|161790164|gb|FC076943.1|FC076943
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTGAGAGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|9458540|gb|BE452290.1|BE452290
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10771379|gb|AV622202.1|AV622202
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10768642|gb|AV619467.1|AV619467
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10769752|gb|AV620577.1|AV620577
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCA
EST: gi|10772874|gb|AV623697.1|AV623697
EST:     TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAG                         GATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGG
genomic: TGTGCGTGGCCGTGCCCAAGTCCGACTGCCAGGTCAAGACCATTTCCGAGgtgcggaggc ... cgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgcaaacccgttctgacacacgaactgcatctgcgcctgtgtccgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCAGCGGCAAGTGGACGATGATGGCGACATGACTTCAGGGCGCTGACGCCAA
            ttctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcggaggctggagaagctgctaggcgttggggtctgggaggcgctctgggcattctacgtgaacagatatgtcgttgcaaacccgttctgacacacgaactgcatctgcgcctgtgtccgctatgcagGATGAGCTGCTGGACATGCAGCTGATGACCAGCCAGTAAGCGACAGAGGCAGCGGCAAGTGGACGATGATGGCGACATGACTTCAGGGCGCTGACGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA