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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgagggtcgtccaaacatgggaccactaatttgcctattctccgatcctggtaagatcaatttttagattcgccagttttctgatacggcttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCCATCCGAAATTGTCCCTGCTACTTTGAAGAAGTCTGCACGCCCCCCCAGC

Basic information

species Physcomitrella patens
transcript PP1S95_87V6.1
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|67716762|gb|BJ967022.1|BJ967022
EST:     AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTG                         GTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
genomic: AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTGgtgagtcctt ... cttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
EST: gi|18345779|gb|BJ177822.1|BJ177822
EST:     AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTG                         GTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
genomic: AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTGgtgagtcctt ... cttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
EST: gi|208365903|gb|DC951082.1|DC951082
EST:     AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTG                         GTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
genomic: AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTGgtgagtcctt ... cttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
EST: gi|67725282|gb|BJ975541.1|BJ975541
EST:     AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTG                         GTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
genomic: AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTGgtgagtcctt ... cttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
EST: gi|37824891|gb|BJ582957.1|BJ582957
EST:     AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTG                         GTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC
genomic: AAGTCGAAGGAATACGTGAAGGAGAACTTCGCGTGGAGGCACTACTATTGgtgagtcctt ... cttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcctggtaagatcaatttttagattcgccagttttctgatacggcttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCCATCCGAAATTGTCCCTGCTACTTTGAAGAAGTCTGCACGCCCCCCCAGC
                                           ggcttac  putative branch site (score: 3)
       taagatcaattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgagggtcgtccaaacatgggaccactaatttgcctattctccgatcctggtaagatcaatttttagattcgccagttttctgatacggcttactgcagGTATTTGACCAATGACGGTATCGAGCACTTGAGGGCCTACCTCAACCTCCCATCCGAAATTGTCCCTGCTACTTTGAAGAAGTCTGCACGCCCCCCCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT