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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcacatctcagctcgcagtggctcccaccccctgcgtccccctgctcatcgtgtctcctgtaaaggtccgctgatgatacccgaatcaaacctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACCTGGAAGTCTACTTGCGGCTGGGAGGAGATTTACGTGGCCACGATCGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO99075
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|49466983|gb|BP094896.1|BP094896
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10783876|gb|AV640548.1|AV640548
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10784787|gb|AV641459.1|AV641459
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|6549790|gb|AV395574.1|AV395574
EST:     AATCCAACGGAACAAATGCCGAGAAGTAGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10786765|gb|AV643437.1|AV643437
EST:     ATCCAACGGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: ATCCAACGG-AACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|49467747|gb|BP095608.1|BP095608
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10791451|gb|AV628817.1|AV628817
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|22051592|gb|BQ809748.1|BQ809748
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10783639|gb|AV640311.1|AV640311
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|49466656|gb|BP094569.1|BP094569
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10786863|gb|AV643535.1|AV643535
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10787434|gb|AV644106.1|AV644106
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|49468331|gb|BP096192.1|BP096192
EST:     AATCCAACGGAACAAATGCCGAGAAGTNGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10784021|gb|AV640693.1|AV640693
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
EST: gi|10785578|gb|AV642250.1|AV642250
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTC
EST: gi|6550812|gb|AV396596.1|AV396596
EST:     AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGG                         ATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC
genomic: AATCCAACGGAACAAATGCCGAGAAGTTGGCTGCCAACATTCTGCAGTGGgtgagttgtg ... cctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcgtgtctcctgtaaaggtccgctgatgatacccgaatcaaacctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACCTGGAAGTCTACTTGCGGCTGGGAGGAGATTTACGTGGCCACGATCGAG
                       cgctgat  putative branch site (score: 4)
                                             cctttcgc  putative PPT
                                      aatcaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcacatctcagctcgcagtggctcccaccccctgcgtccccctgctcatcgtgtctcctgtaaaggtccgctgatgatacccgaatcaaacctttcgcagATTACTTTTGCGCTTTCAGCGCTCTGCCTGATGTTCTACGGCTACCAGACCTGGAAGTCTACTTGCGGCTGGGAGGAGATTTACGTGGCCACGATCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
gcacatc
- - - - - - - - - - - - -caccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatcaaa