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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCAGGGCTGCGGCCTCAGGGGAAGCTTATCTGCATACTTCTCTTTCCAAGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgcttttcaacataaataccttgatagtccccatcttgttattacctattaatactctttgttgtgagagattacatacatctcaattcacaggatc...

Basic information

species Physcomitrella patens
transcript PP1S4_80V6.1
intron # 4
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|208345072|gb|DC925426.1|DC925426
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|208379403|gb|DC919019.1|DC919019
EST:     AGGATGGGGAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|162279530|gb|FC455321.1|FC455321
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGANAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|208379109|gb|DC911634.1|DC911634
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAANG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|208399395|gb|DC924825.1|DC924825
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|7047315|gb|AW477209.1|AW477209
EST:     AGGATGGCAAGCCAGTGATCGTTGTCACATCAGCTACTCATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|162279529|gb|FC455320.1|FC455320
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|208344682|gb|DC905131.1|DC905131
EST:     AGGATGGGGAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|37838301|gb|BJ596309.1|BJ596309
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|208376190|gb|DC911014.1|DC911014
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAA-T                         GATGCAAANTTACCGGAAAGCCANA-ACATTGCGTGTATT
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATT
EST: gi|162258991|gb|FC435934.1|FC435934
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|162254025|gb|FC429341.1|FC429341
EST:     ATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: ATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
EST: gi|37841164|gb|BJ599172.1|BJ599172
EST:     AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAAT                         GATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG
genomic: AGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgctttt ... ttgtgtacagGATGCAGAGTTACCGGAAAGCCAGAGACATTGCGTGTATTTGATAGAAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCAGGGCTGCGGCCTCAGGGGAAGCTTATCTGCATACTTCTCTTTCCAAGGATGGGAAGCCAGTGATCGTTGTCACATCAGCTAAACATTTCCCAAATgtacgcttttcaacataaataccttgatagtccccatcttgttattacctattaatactctttgttgtgagagattacatacatctcaattcacaggatc

- - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT