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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaacttgtcaagtttttgttgttctgaggctggagtgttgaagagacattctctgcgcctcatcatcatgccttaaccacgtgctgtattttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTTGAAGACTGTGTTTCTCTTTGAGTTTCCTTTGTACAACAAAACAAAGCCG

Basic information

species Physcomitrella patens
transcript PP1S69_206V6.1
intron # 9
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|162277931|gb|FC454062.1|FC454062
EST:     AAGAAGCATGGAAGCAATCCAGAGTTTCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208374653|gb|DC948639.1|DC948639
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|162277932|gb|FC454063.1|FC454063
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208361108|gb|DC946713.1|DC946713
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208372267|gb|DC948070.1|DC948070
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208364468|gb|DC958037.1|DC958037
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208374045|gb|DC948914.1|DC948914
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208365275|gb|DC946820.1|DC946820
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
EST: gi|208373125|gb|DC948890.1|DC948890
EST:     AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAG                         CCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT
genomic: AAGAAGCATGGAAGCAATCCAGAGTATCGGGCTTATAAGCATAGAACGAGgtactgttcg ... tttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacattctctgcgcctcatcatcatgccttaaccacgtgctgtattttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTTGAAGACTGTGTTTCTCTTTGAGTTTCCTTTGTACAACAAAACAAAGCCG
                          ccttaac  putative branch site (score: 3)
                                            ttttgtt  putative PPT
                                          tattttgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaacttgtcaagtttttgttgttctgaggctggagtgttgaagagacattctctgcgcctcatcatcatgccttaaccacgtgctgtattttgttacagCCCTCTCATTCCACTTCCACCTACTCTTTATGGTAGCCTTTCGAAGACGTTGAAGACTGTGTTTCTCTTTGAGTTTCCTTTGTACAACAAAACAAAGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgta