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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctggattgtgcctcttcttatttgtcgattgaacatgaagtttagttcttcttttttctgttacatgtaaatgacgtttatcttcgcaaggttcttttacgagggttaccagatcttcagtatacatcatctttgtgctgatgaatggattccacctgttaatatgttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTGGATCGTTATTCGTTCACAATTTCAAAGTTTTGACTGATAAGCTGAGAAA

Basic information

species Physcomitrella patens
transcript PP1S6_158V6.1
intron # 13
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|162181973|gb|FC356844.1|FC356844
EST:     TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAA                         GGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
genomic: TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAAgtaagttcct ... ttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
EST: gi|162157241|gb|FC332875.1|FC332875
EST:     TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAA                         GGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
genomic: TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAAgtaagttcct ... ttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
EST: gi|162176016|gb|FC351836.1|FC351836
EST:     TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAA                         GGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
genomic: TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAAgtaagttcct ... ttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
EST: gi|37846987|gb|BJ604995.1|BJ604995
EST:     TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAA                         GGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG
genomic: TGTGGTGTAAAACTTGATCCCAATAATAAGGAGATGATTGAATCTTTCAAgtaagttcct ... ttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacatcatctttgtgctgatgaatggattccacctgttaatatgttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTGGATCGTTATTCGTTCACAATTTCAAAGTTTTGACTGATAAGCTGAGAAA
                                   tgttaat  putative branch site (score: 3)
                                     ttaatatgttactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcctggattgtgcctcttcttatttgtcgattgaacatgaagtttagttcttcttttttctgttacatgtaaatgacgtttatcttcgcaaggttcttttacgagggttaccagatcttcagtatacatcatctttgtgctgatgaatggattccacctgttaatatgttacttgcagGGGTGCCGTGGAAGCTGGTAAAAAGTTTCATGGGACAGCGTAAACGGACTGGATCGTTATTCGTTCACAATTTCAAAGTTTTGACTGATAAGCTGAGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA