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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttggttgaaacgttacatgctcttttgttgctgtctaagattatccatcagcataccatcactctgtataaactgcctaattattgataacatttagtgaagctcacggctgccagataattaagaattcgttgtctctgggattctaagtccagagtgtccacttttgttcgatctcttggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTCGGAGATGATGCCGAGACTGAAGCTGTCACCGAGCCAGTTCCTGGGGCTT

Basic information

species Physcomitrella patens
transcript PP1S92_47V6.1
intron # 5
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|208360419|gb|DC950032.1|DC950032
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|37851788|gb|BJ609796.1|BJ609796
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7584076|gb|AW699974.1|AW699974
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|37826206|gb|BJ584218.1|BJ584218
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7583183|gb|AW699347.1|AW699347
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7584167|gb|AW700065.1|AW700065
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|15261274|gb|BI436584.1|BI436584
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7583619|gb|AW699527.1|AW699527
EST:     GTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: GTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|37847269|gb|BJ605277.1|BJ605277
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|67694711|gb|BJ954944.1|BJ954944
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|162261198|gb|FC437215.1|FC437215
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|162216968|gb|FC393086.1|FC393086
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|162185711|gb|FC361565.1|FC361565
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCAGGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|162217884|gb|FC393880.1|FC393880
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7287204|gb|AW599691.1|AW599691
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCAGTGCCAACATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|15326916|gb|BI487299.1|BI487299
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7148134|gb|AW510056.1|AW510056
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7584091|gb|AW699989.1|AW699989
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|22491668|gb|BU051591.1|BU051591
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|37844503|gb|BJ602511.1|BJ602511
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|37826625|gb|BJ584637.1|BJ584637
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7583567|gb|AW700048.1|AW700048
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|7583603|gb|AW699512.1|AW699512
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCCGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|15261183|gb|BI436493.1|BI436493
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAG                         GTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC
genomic: AAGTGAAGATTCTGAAGGCTCCAAAGTTCGATCTGATGAAGCTCATGGAGgtgagtgttg ... ggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgggattctaagtccagagtgtccacttttgttcgatctcttggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTCGGAGATGATGCCGAGACTGAAGCTGTCACCGAGCCAGTTCCTGGGGCTT
                                       tctcttg  CT-rich tract
       attctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgttggttgaaacgttacatgctcttttgttgctgtctaagattatccatcagcataccatcactctgtataaactgcctaattattgataacatttagtgaagctcacggctgccagataattaagaattcgttgtctctgggattctaagtccagagtgtccacttttgttcgatctcttggtttcatagGTTCACGGCGACTACAGCGAGGAAGTCGGTGCCAAGATCGAGAGGCCTGTCGGAGATGATGCCGAGACTGAAGCTGTCACCGAGCCAGTTCCTGGGGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG