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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatataccacgggttttcttgtgtcgaaaacagaaccttgcttgttgggagatttgaagtggtgtggctgagtggtggggcgattgtgttgtgcagtagGGAATGTTGACTCAAAGTCACGTTCCTACGATTCTTCCTCCACGGATTGGCCAACTCCAGGAGAATCTGAAGCTGATGAAACCCGCTATTCCCGTCATTC

Basic information

species Physcomitrella patens
transcript PP1S48_255V6.2
intron # 1
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|100393024|gb|BY989722.1|BY989722
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|100387330|gb|BY970474.1|BY970474
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|100447775|gb|CJ972074.1|CJ972074
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100447775|gb|CJ972074.1|CJ972074
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100447775|gb|CJ972074.1|CJ972074
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18331214|gb|BJ163223.1|BJ163223
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|100430336|gb|BY959818.1|BY959818
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100430336|gb|BY959818.1|BY959818
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100430336|gb|BY959818.1|BY959818
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18345213|gb|BJ177254.1|BJ177254
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18345213|gb|BJ177254.1|BJ177254
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18345213|gb|BJ177254.1|BJ177254
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18370450|gb|BJ202052.1|BJ202052
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18370450|gb|BJ202052.1|BJ202052
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18370450|gb|BJ202052.1|BJ202052
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18327173|gb|BJ159175.1|BJ159175
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18327173|gb|BJ159175.1|BJ159175
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18327173|gb|BJ159175.1|BJ159175
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100352954|gb|BY945533.1|BY945533
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|162186349|gb|FC361657.1|FC361657
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|100363827|gb|BY966190.1|BY966190
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100363827|gb|BY966190.1|BY966190
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|100363827|gb|BY966190.1|BY966190
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18353041|gb|BJ185096.1|BJ185096
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18353041|gb|BJ185096.1|BJ185096
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18353041|gb|BJ185096.1|BJ185096
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18352328|gb|BJ184382.1|BJ184382
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18352328|gb|BJ184382.1|BJ184382
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|18352328|gb|BJ184382.1|BJ184382
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|208361526|gb|DC942811.1|DC942811
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|208361526|gb|DC942811.1|DC942811
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|208361526|gb|DC942811.1|DC942811
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAG                         T
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGgtagtgtatt ... tgtgcagtag-
EST: gi|67570257|gb|BJ943081.1|BJ943081
EST:     GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGAAAGTAG                       
genomic: GGTGCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagt
EST: gi|100435075|gb|BY979061.1|BY979061
EST:     GCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGGGAAGTAG                         GGAATGTTGACTCCAAGTCACGTTCCTACGATTCTTCCTCCACGGA
genomic: GCAGGATGTGGCTGAGGATGCTCTTCACGTGAACCGTGACGGG-AA--AGgtagtgtatt ... tgtgcagtagGGAATGTTGACTCAAAGTCACGTTCCTACGATTCTTCCTCCACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggagatttgaagtggtgtggctgagtggtggggcgattgtgttgtgcagtagGGAATGTTGACTCAAAGTCACGTTCCTACGATTCTTCCTCCACGGATTGGCCAACTCCAGGAGAATCTGAAGCTGATGAAACCCGCTATTCCCGTCATTC
       atttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaatataccacgggttttcttgtgtcgaaaacagaaccttgcttgttgggagatttgaagtggtgtggctgagtggtggggcgattgtgttgtgcagtagGGAATGTTGACTCAAAGTCACGTTCCTACGATTCTTCCTCCACGGATTGGCCAACTCCAGGAGAATCTGAAGCTGATGAAACCCGCTATTCCCGTCATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT