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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttggcacgcatgggtcccgggtttaggtctctatgctggactgcactcgaacccctcttaccccatcgctcctcctccctcctcctcccggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACACGCCGGAGCAGCTGGAGGCAGCCAACAAGAGCAAGGCTGCCTTCCAGGCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP09617
intron # 10
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|23362291|gb|BU650111.1|BU650111
EST:     CGCCTGCTTGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCG                         CCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
genomic: CGCCTGCTTGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCGgtggggccgg ... cggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
EST: gi|161813771|gb|FC104475.1|FC104475
EST:     CGCCTGCTGGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCG                         CCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
genomic: CGCCTGCTTGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCGgtggggccgg ... cggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
EST: gi|161791746|gb|FC078641.1|FC078641
EST:     CGCCTGCTGGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCG                         CCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
genomic: CGCCTGCTTGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCGgtggggccgg ... cggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
EST: gi|161818190|gb|FC101896.1|FC101896
EST:     CGCCTGCTGGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCG                         CCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
genomic: CGCCTGCTTGAGGAGTTCTGGGGCCGCCACAACCCCACGCAGCTCAACCGgtggggccgg ... cggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
EST: gi|161792760|gb|FC080701.1|FC080701
EST:     GCCTGCTGGAGGAGTTCTGGGGCCTGC-ACAACCCCACGCAGCTCAACCG                         CCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC
genomic: GCCTGCTTGAGGAGTTCTGGGGCC-GCCACAACCCCACGCAGCTCAACCGgtggggccgg ... cggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactcgaacccctcttaccccatcgctcctcctccctcctcctcccggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACACGCCGGAGCAGCTGGAGGCAGCCAACAAGAGCAAGGCTGCCTTCCAGGCC
           ctcttac  putative branch site (score: 3)
        cccctcttaccccatc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttggcacgcatgggtcccgggtttaggtctctatgctggactgcactcgaacccctcttaccccatcgctcctcctccctcctcctcccggcccgcagCCAAGGCAACGACGTGGGCACTCAGTACCGTAGCGCCATCTTCACGCACACGCCGGAGCAGCTGGAGGCAGCCAACAAGAGCAAGGCTGCCTTCCAGGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - -acgcatg
- - - - - - - - - - - -tttaggt