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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCGGTCCACAGCCTAACTCTAAGCTGCTGCTTAACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcgtccctttctcaattctccacgaatatcgactacagttcatttttcgtctgctcatgtaattgctgttcaccttttctgttaattcgccaggttgccataagatacttgtgaaacgtaacgtagaatctggattgcttcaaactcacggtactgtgcag

Basic information

species Physcomitrella patens
transcript PP1S181_117V6.1
intron # 7
splice site 5'
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|162162595|gb|FC338689.1|FC338689
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAA-GGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|37834676|gb|BJ592688.1|BJ592688
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162198876|gb|FC372903.1|FC372903
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162258112|gb|FC433894.1|FC433894
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162177903|gb|FC355153.1|FC355153
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162233878|gb|FC409728.1|FC409728
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162162594|gb|FC338688.1|FC338688
EST:     ACTACGGGTTGGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162205687|gb|FC380771.1|FC380771
EST:     CTACGAGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: CTACG-GGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162221407|gb|FC397216.1|FC397216
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162157457|gb|FC333520.1|FC333520
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|67697073|gb|BJ957306.1|BJ957306
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162161113|gb|FC336461.1|FC336461
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162228256|gb|FC404972.1|FC404972
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162198877|gb|FC372904.1|FC372904
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162254786|gb|FC430763.1|FC430763
EST:     ACTACGGGTTGGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATGGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|37829068|gb|BJ587080.1|BJ587080
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162190739|gb|FC367001.1|FC367001
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162254787|gb|FC430764.1|FC430764
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|208352660|gb|DC921394.1|DC921394
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|37838228|gb|BJ596236.1|BJ596236
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|18340613|gb|BJ172641.1|BJ172641
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162205686|gb|FC380770.1|FC380770
EST:     ACTACGGGTTNGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162163084|gb|FC338474.1|FC338474
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162205220|gb|FC380902.1|FC380902
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162158625|gb|FC335525.1|FC335525
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATNGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162158626|gb|FC335526.1|FC335526
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162157456|gb|FC333519.1|FC333519
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162162496|gb|FC339214.1|FC339214
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
EST: gi|162233877|gb|FC409727.1|FC409727
EST:     ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAG                         GCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA
genomic: ACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcg ... tactgtgcagGCATCATTGGATACAGAGGATCCTCTTTACCAACAGAAAAGGGCTATCGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCGGTCCACAGCCTAACTCTAAGCTGCTGCTTAACTACGGGTTTGTAGATGAAGATAATCCTTACGATCGACTTGCCGTCGAGgtatttttcgtccctttctcaattctccacgaatatcgactacagttcatttttcgtctgctcatgtaattgctgttcaccttttctgttaattcgccaggttgccataagatacttgtgaaacgtaacgtagaatctggattgcttcaaactcacggtactgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA