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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgatcatagctcgcgaaacatccttgaactacttgttgcattatccacaatgatattcgaacggaagatttgtacctacgtttgtatcatttgaaatctggtattattggtacttgactggtgactggtggcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG

Basic information

species Physcomitrella patens
transcript PP1S179_27V6.3
intron # 6
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|162269911|gb|FC445415.1|FC445415
EST:     CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCG                         GGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG
genomic: CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCGgtaactgatc ... gcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG
EST: gi|162198488|gb|FC375323.1|FC375323
EST:     CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCG                         GGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCGAAGG
genomic: CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCGgtaactgatc ... gcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG
EST: gi|162198645|gb|FC374791.1|FC374791
EST:     CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCG                         GGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCGAAGG
genomic: CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCGgtaactgatc ... gcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG
EST: gi|162150868|gb|FC327348.1|FC327348
EST:     CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCG                         GGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCGAAGG
genomic: CAAAGAGAATAGAGATATCACAGTCCAATTGTTGAATTACACTAAGAGCGgtaactgatc ... gcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatttgaaatctggtattattggtacttgactggtgactggtggcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG
                          acttgac  putative branch site (score: 4)
                tattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactgatcatagctcgcgaaacatccttgaactacttgttgcattatccacaatgatattcgaacggaagatttgtacctacgtttgtatcatttgaaatctggtattattggtacttgactggtgactggtggcaattgcagGGAAACCATTTTGGAATCTCTTCCATCTGCAGGCCATGCGCGATCAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG