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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAAGGTCAAGGTATTTACGCATTTGTGACACTTCTAGAAGGCGTAGAGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatgctcaatataaaaaccagccgaactagcttacatgcctcgacaacttgccgtttccaaccgaatatacaagtccatatcaccattttaattcctgcgaaatgccttgttgacag

Basic information

species Physcomitrella patens
transcript PP1S398_15V6.1
intron # 16
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|162245062|gb|FC422914.1|FC422914
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162163341|gb|FC339667.1|FC339667
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162208859|gb|FC384995.1|FC384995
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162258983|gb|FC435926.1|FC435926
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCAT
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCAT
EST: gi|162178870|gb|FC354802.1|FC354802
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162187284|gb|FC363234.1|FC363234
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162156880|gb|FC333034.1|FC333034
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162257810|gb|FC434008.1|FC434008
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162258982|gb|FC435925.1|FC435925
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|67723995|gb|BJ974254.1|BJ974254
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|37829232|gb|BJ587244.1|BJ587244
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162255647|gb|FC431645.1|FC431645
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162171541|gb|FC347843.1|FC347843
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162197339|gb|FC372301.1|FC372301
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|162267682|gb|FC443464.1|FC443464
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|37823050|gb|BJ581116.1|BJ581116
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
EST: gi|67695932|gb|BJ956165.1|BJ956165
EST:     AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAG                         ATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC
genomic: AGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatg ... ttgttgacagATTGGAGCGTTCGCAGCACCTGATGTAGTCCATTGGGCTCCAGGACTGCCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAAGGTCAAGGTATTTACGCATTTGTGACACTTCTAGAAGGCGTAGAGTACAGCAATGATCTTCGCAAAGCTCTCATCAACTCCGTTAGATCACAGgtaatacatgctcaatataaaaaccagccgaactagcttacatgcctcgacaacttgccgtttccaaccgaatatacaagtccatatcaccattttaattcctgcgaaatgccttgttgacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA