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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGATGAGGTTTGCCAGTTCTTGGTGGGATCTGGCATTCCTGAATATATTTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcgaattcaattactttttcctcatggctccttcagattccttcgggttggttctatgtgaatagcccctggatcgagatattgtttgtttgagctacccgcagttgaatcttacttgtttgtgcgcatggcag

Basic information

species Physcomitrella patens
transcript PP1S79_2V6.1
intron # 3
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|100377489|gb|BY986274.1|BY986274
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAAC-ACATTGCGAAACGG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGG
EST: gi|22491715|gb|BU051638.1|BU051638
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|100446638|gb|CJ970937.1|CJ970937
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|100356888|gb|BY965329.1|BY965329
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|162197741|gb|FC374991.1|FC374991
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAAACG-TGGTGTACCT
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAA-CGGTGGTGTACCT
EST: gi|100400044|gb|BY990750.1|BY990750
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCCG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|162205973|gb|FC382758.1|FC382758
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|162228527|gb|FC404450.1|FC404450
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|67576432|gb|BJ949256.1|BJ949256
EST:     TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAA                         GGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
genomic: TTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAGAAAATCTGGAAACCACATTGCGAAACGGTGGTGTACCTG
EST: gi|18355136|gb|BJ187195.1|BJ187195
EST:     TTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCCATGGGTGGTCTGCCNA                         GGCCAATGATAG
genomic: TTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCC-ATGGGTGGTCTGCTAAgtaagttcga ... cgcatggcagGGCCAATGATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGATGAGGTTTGCCAGTTCTTGGTGGGATCTGGCATTCCTGAATATATTTTGCGTTTACCGGAAGAAGTTTTGAGCAGCCCCATGGGTGGTCTGCTAAgtaagttcgaattcaattactttttcctcatggctccttcagattccttcgggttggttctatgtgaatagcccctggatcgagatattgtttgtttgagctacccgcagttgaatcttacttgtttgtgcgcatggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG