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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAATTTGAAAGTTCCACTAGTAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaattatgttaccttcgtcgtgcgattctgacgttaggtcaggtgtattggtggcaaacttagaatttacggttaattttggaatgctaatatacgtgtggaactcccgtggtgcttggtgcag

Basic information

species Physcomitrella patens
transcript PP1S9_103V6.2
intron # 11
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|18338652|gb|BJ170676.1|BJ170676
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|208365272|gb|DC946817.1|DC946817
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|208352527|gb|DC918236.1|DC918236
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|67724647|gb|BJ974906.1|BJ974906
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|18334936|gb|BJ166954.1|BJ166954
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGGCCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|67691893|gb|BJ952126.1|BJ952126
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|67727713|gb|BJ977972.1|BJ977972
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|162189403|gb|FC366561.1|FC366561
EST:     GGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: GGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|208397427|gb|DC916353.1|DC916353
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCACCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|37829801|gb|BJ587813.1|BJ587813
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
EST: gi|67695119|gb|BJ955352.1|BJ955352
EST:     TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAG                         GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG
genomic: TAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaat ... cttggtgcagGAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAATTTGAAAGTTCCACTAGTAGTACGTTTGGAGGGTACGAATGTGGATGTTGGGAAGACCATCCTGAAGgtatcagaattatgttaccttcgtcgtgcgattctgacgttaggtcaggtgtattggtggcaaacttagaatttacggttaattttggaatgctaatatacgtgtggaactcccgtggtgcttggtgcag

- - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG