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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatggttgaatgtgatttgatctcttctgtatggtggagcccatttgctactgggtgcgtctagctgaccgttccaccttgtctgcttgccgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACATGGAGGCGCTGAAGAAGATGCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP03982
intron # 2
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|10788056|gb|AV644728.1|AV644728
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|10782915|gb|AV639587.1|AV639587
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|10786054|gb|AV642726.1|AV642726
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|49467062|gb|BP094975.1|BP094975
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|6552100|gb|AV397884.1|AV397884
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|22051882|gb|BQ809934.1|BQ809934
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|6547392|gb|AV393176.1|AV393176
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|49465381|gb|BP093294.1|BP093294
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|6546630|gb|AV392414.1|AV392414
EST:     CGTTCCAGGCGAATGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCCGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: CGTTCCAGGCGAA-GTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|49460469|gb|BP088382.1|BP088382
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
EST: gi|15702828|gb|BI727133.1|BI727133
EST:     TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAG                         GCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT
genomic: TCGTTCCAGGCGAAGTCGGCGGCCTCGGCTCGCGGCGCCGTCCGTGGCAGgtgcatcggg ... cgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctactgggtgcgtctagctgaccgttccaccttgtctgcttgccgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACATGGAGGCGCTGAAGAAGATGCAG
                 agctgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatggttgaatgtgatttgatctcttctgtatggtggagcccatttgctactgggtgcgtctagctgaccgttccaccttgtctgcttgccgatgcgtagGCGCAGCGTGGTCGTTCAGGCCGCCAAGGAGCTGCACTTCAACCGCAACATGGAGGCGCTGAAGAAGATGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
tatggtt
- - - - - tgtgatt
- - - - - - - - - - - - -tctgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgcttg