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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACGCTCCTACATATGATGAAAATTCTTTCTCTATTCCAGGATTTAAAGGCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttgaagctctgcagtgttcgtatcttcttttttacgaaatgacttcatggttttcttttgtacaccacttacaagcacctctatctttatatttaggtcattctttcttatacataacgtcattatcgggcag

Basic information

species Physcomitrella patens
transcript PP1S47_23V6.1
intron # 2
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|208382438|gb|DC927972.1|DC927972
EST:     CTCATTGGTTGAGTTCATGCTGAAAGAAANCAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: CTCATTGGTTGAGTTCATGCTGAAAGAAA-CAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|100439747|gb|BY962087.1|BY962087
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|100399470|gb|BY972735.1|BY972735
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|100414345|gb|BY992730.1|BY992730
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|100451193|gb|CJ974643.1|CJ974643
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTT-CCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|162223997|gb|FC400355.1|FC400355
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|100351812|gb|BY964562.1|BY964562
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTTCCTGAGGACTT
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTT-CCTGAGGACTT
EST: gi|208398077|gb|DC904382.1|DC904382
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|208386766|gb|DC937158.1|DC937158
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGANGTATCAAGCGCCCGACGAACATCCTTTCTTTCCT
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCT
EST: gi|100409507|gb|BY955967.1|BY955967
EST:     CTCATTGGTTGAGTTCATGCTGAAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: CTCATTGGTTGAGTTCATGCTGAAA-GAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
EST: gi|208354962|gb|DC914226.1|DC914226
EST:     GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAA                         GTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA
genomic: GCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttga ... tatcgggcagGTGCGGAGGTATCAAGCGCCCGACGAACATCCTTTCTTTCCTGAGGACTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACGCTCCTACATATGATGAAAATTCTTTCTCTATTCCAGGATTTAAAGGCTCATTGGTTGAGTTCATGCTGAAAGAAACAGAGACTCTGCATGCCAAAgtgagtttgaagctctgcagtgttcgtatcttcttttttacgaaatgacttcatggttttcttttgtacaccacttacaagcacctctatctttatatttaggtcattctttcttatacataacgtcattatcgggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA