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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaagaatctgccgaactttgttggtgaccgaggcatctatatcgctttccgtatcaattcctcgaattcccttatcgaaaatgccgctattttaggtgtgtgttgcgagttttttctttcacatgaagataagattttaggaatataaatgctctacgtcgcttttcaaattcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGATGTTGAACCAAGCTCTCATCAATTTTGGCCTCTCCTTCTTGATCAAGCG

Basic information

species Physcomitrella patens
transcript PP1S142_120V6.1
intron # 2
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|208399121|gb|DC912392.1|DC912392
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|67718504|gb|BJ968763.1|BJ968763
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAANCAN                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|100447765|gb|CJ972064.1|CJ972064
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|100364655|gb|BY947842.1|BY947842
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTTGAAACA-TACGGGGTG
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTT-GAAACAATACGGGGTG
EST: gi|208394382|gb|DC942542.1|DC942542
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACNGGGGTG
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATAC-GGGGTG
EST: gi|100447644|gb|CJ971943.1|CJ971943
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGANGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|100446744|gb|CJ971043.1|CJ971043
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|100394755|gb|BY989909.1|BY989909
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|208384748|gb|DC915281.1|DC915281
EST:     TAACCATGTGNATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGANGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|162179840|gb|FC355911.1|FC355911
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|67717323|gb|BJ967582.1|BJ967582
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
EST: gi|67574064|gb|BJ946888.1|BJ946888
EST:     TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAG                         GTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA
genomic: TAACCATGTGGATCTCGTGAACAAATTGGGAATTGTTGAGCTTGAAGCAGgtattaagaa ... attcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagataagattttaggaatataaatgctctacgtcgcttttcaaattcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGATGTTGAACCAAGCTCTCATCAATTTTGGCCTCTCCTTCTTGATCAAGCG
                                              ttcctgc  CT-rich tract
     taagattttaggaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattaagaatctgccgaactttgttggtgaccgaggcatctatatcgctttccgtatcaattcctcgaattcccttatcgaaaatgccgctattttaggtgtgtgttgcgagttttttctttcacatgaagataagattttaggaatataaatgctctacgtcgcttttcaaattcctgcagGTACTGATGTTGCTGGAGGACGAGGCTACTTTTTGAAACAATACGGGGTGATGTTGAACCAAGCTCTCATCAATTTTGGCCTCTCCTTCTTGATCAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT