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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctccagatcagttatctgcgttgcggtccaactcatccctagatatgtaacctagccaccccgtgttttggctgtcattgttcgtgtgaaatacacaacatcttgtgttacacgctgtgcactgcctctgaccctatgcatatatgtactgcttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCGAGCTGTTCATGTCGCCGACCTCCGTGCAGTACGCCCTGTTCAACTCCAA

Basic information

species Chlamydomonas reinhardtii
transcript EDO99600
intron # 4
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|34990254|gb|CF564171.1|CF564171
EST:     CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTG                         GCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
genomic: CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTGgtgagctcca ... ttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
EST: gi|161801715|gb|FC092657.1|FC092657
EST:     CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTCCCGGCTG                         GCGGCCTGTCCGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
genomic: CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTGgtgagctcca ... ttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
EST: gi|34987901|gb|CF561818.1|CF561818
EST:     CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTG                         GCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
genomic: CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTGgtgagctcca ... ttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
EST: gi|34990252|gb|CF564169.1|CF564169
EST:     CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTG                         GCGGCCTGTCTGTGAGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
genomic: CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTGgtgagctcca ... ttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
EST: gi|6542464|gb|AV388248.1|AV388248
EST:     CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTG                         GCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG
genomic: CCTGCGCATTTCTAAGGGCCTTGACTACTCCGCGGCCACGCTTCCAGCTGgtgagctcca ... ttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacacgctgtgcactgcctctgaccctatgcatatatgtactgcttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCGAGCTGTTCATGTCGCCGACCTCCGTGCAGTACGCCCTGTTCAACTCCAA
                  ctctgac  putative branch site (score: 3)
                                         ctgcttcctt  putative PPT
                                atatatgta  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagctccagatcagttatctgcgttgcggtccaactcatccctagatatgtaacctagccaccccgtgttttggctgtcattgttcgtgtgaaatacacaacatcttgtgttacacgctgtgcactgcctctgaccctatgcatatatgtactgcttccttgcagGCGGCCTGTCTGTGTGCGTGAACCGCCTGGCTGGCCAGTGCACGATCAGCGAGCTGTTCATGTCGCCGACCTCCGTGCAGTACGCCCTGTTCAACTCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT