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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGATGCACTTCATGGTGTTGCTGGTGTGTACGCCAAAAAGATCTTCTTGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcatgagattgaattttacgcactgacttcacaatgtctgaacgcattatgttgtgaattgatgatttgttgacaactcaaaaagttatggtag...

Basic information

species Physcomitrella patens
transcript PP1S168_70V6.1
intron # 10
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|100417708|gb|BY975615.1|BY975615
EST:     TGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAG                         GAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
genomic: TGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcat ... ctgcatacagGAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
EST: gi|162194861|gb|FC370525.1|FC370525
EST:     GGAAGAATTGGGAGCAAAAGGAA-GCTCATTGTTAAACTGCGAGCCGAAG                         GAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
genomic: GGAAGAATTGGGAGCAAA-GGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcat ... ctgcatacagGAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
EST: gi|162223684|gb|FC399457.1|FC399457
EST:     TGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAG                         GAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
genomic: TGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcat ... ctgcatacagGAGGACTTCGGTGGAGGTCATCCTGACCCAAACCTAACTTATGCTAAGGAA
EST: gi|100405914|gb|BY991447.1|BY991447
EST:     TGGAAAAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAG                         GAAGACTTCGGTGGAGGTCATCCTGACCCAA
genomic: TGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcat ... ctgcatacagGAGGACTTCGGTGGAGGTCATCCTGACCCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATGATGCACTTCATGGTGTTGCTGGTGTGTACGCCAAAAAGATCTTCTTGGAAGAATTGGGAGCAAAGGAAAGCTCATTGTTAAACTGCGAGCCGAAGgtgaattcatgagattgaattttacgcactgacttcacaatgtctgaacgcattatgttgtgaattgatgatttgttgacaactcaaaaagttatggtag

- - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA