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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggcgggaggaaataacgaacacgcccttggctcgacgtgctgcgcacctgctgctgctgccgacctgatggtgttgctgctgctgcctcgccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAGGGCCTCATGGTGGGCATCAGCTCGGGCGCCGCGGTGCAGGCCGCCATCA

Basic information

species Chlamydomonas reinhardtii
transcript EDP04426
intron # 7
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|14237450|gb|BG856266.1|BG856266
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
EST: gi|23366664|gb|BU654483.1|BU654483
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
EST: gi|14226587|gb|BG845419.1|BG845419
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
EST: gi|23366663|gb|BU654482.1|BU654482
EST:     AGGTGGTGCAG                         GTGTCCAGTAG-CGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGA
genomic: AGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGT-GACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGA
EST: gi|14235562|gb|BG854378.1|BG854378
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
EST: gi|14235563|gb|BG854379.1|BG854379
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGA-CAGCGAGGTGGGGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTG-CGCTGGGAGGA
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGG-AGGA
EST: gi|23366823|gb|BU654642.1|BU654642
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
EST: gi|7615327|gb|AW720774.1|AW720774
EST:     GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAG                         GTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG
genomic: GCTTTGTGCCCGCGGTGCTGGACACCGCGCTGATCAGCGAGGTGGTGCAGgtgcgtgcag ... gccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacctgctgctgctgccgacctgatggtgttgctgctgctgcctcgccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAGGGCCTCATGGTGGGCATCAGCTCGGGCGCCGCGGTGCAGGCCGCCATCA
                  acctgat  putative branch site (score: 4)
                                         cctcgccctc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggcgggaggaaataacgaacacgcccttggctcgacgtgctgcgcacctgctgctgctgccgacctgatggtgttgctgctgctgcctcgccctcgcagGTGTCCAGTGACGACGCCATCGACATGGCTCGCCGCCTGGCGCTGGAGGAGGGCCTCATGGTGGGCATCAGCTCGGGCGCCGCGGTGCAGGCCGCCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - -acgaaca
- - - - - - - - - - - - - - - - - - - - - - -cacctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgtt