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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtctctttgtacctctcaagaaagaaaacggataatctgaaccgcgatgctttcatagctctttctacgtgggattaatgctctggaattgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGTTCCGTGTTGCCTAATGTTATCCTCCCAGATGCTCTTCGCCAGTCTATAT

Basic information

species Physcomitrella patens
transcript PP1S56_133V6.1
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|208364165|gb|DC943421.1|DC943421
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67712689|gb|BJ966138.1|BJ966138
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67703640|gb|BJ963873.1|BJ963873
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|208385581|gb|DC937126.1|DC937126
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|100354125|gb|BY945723.1|BY945723
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67709725|gb|BJ965541.1|BJ965541
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67719522|gb|BJ969781.1|BJ969781
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67719632|gb|BJ969891.1|BJ969891
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|67718530|gb|BJ968789.1|BJ968789
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
EST: gi|208383636|gb|DC907027.1|DC907027
EST:     TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTG                         GTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT
genomic: TGGTATCCATGGCCAAACATGCAGCGGCGGTTTTGGTTCTCTTCTCCCTGgtaagcatga ... tgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgatgctttcatagctctttctacgtgggattaatgctctggaattgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGTTCCGTGTTGCCTAATGTTATCCTCCCAGATGCTCTTCGCCAGTCTATAT
                            gattaat  putative branch site (score: 3)
                                            ttgtttt  putative PPT
                                          aattgtttt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtctctttgtacctctcaagaaagaaaacggataatctgaaccgcgatgctttcatagctctttctacgtgggattaatgctctggaattgttttgcagGTCAGTGTGTGGCCAGTGACCTTAGCGGGCGACTCGGCAGCACTCTGGAGTTCCGTGTTGCCTAATGTTATCCTCCCAGATGCTCTTCGCCAGTCTATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG