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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaatatgcacagatactaaggcaaatgtttgggcataatatgatctgcgtttgtaacatgagatccagtttataacgaatatttcatttgtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCACATTGCAGTCTGCTCTACAACACTTCTCTTGATTCTTAATCTAATTGTT

Basic information

species Physcomitrella patens
transcript PP1S92_76V6.2
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|100390301|gb|BY952709.1|BY952709
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100364751|gb|BY947890.1|BY947890
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208353868|gb|DC906556.1|DC906556
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|67576938|gb|BJ949762.1|BJ949762
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|67507727|gb|BJ940606.1|BJ940606
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100419143|gb|BY975866.1|BY975866
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100355693|gb|BY946063.1|BY946063
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208400730|gb|DC904908.1|DC904908
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100417287|gb|BY957259.1|BY957259
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100445601|gb|CJ975750.1|CJ975750
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100364550|gb|BY984659.1|BY984659
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100387923|gb|BY970668.1|BY970668
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcgtttgtaacatgagatccagtttataacgaatatttcatttgtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCACATTGCAGTCTGCTCTACAACACTTCTCTTGATTCTTAATCTAATTGTT
                         ttataac  putative branch site (score: 2)
                        tttataacgaatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaatatgcacagatactaaggcaaatgtttgggcataatatgatctgcgtttgtaacatgagatccagtttataacgaatatttcatttgtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCACATTGCAGTCTGCTCTACAACACTTCTCTTGATTCTTAATCTAATTGTT

- - -atgcaca