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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgttagttgtacttgcaggctggcattctctttcttgatatgtctatggtcatctgcatctgaattttgctcgactgatattgggttctgtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCTGTTAACAGTGAATATATAGGTTGTGGTAGTGTAACAAATGAGGTGTTTG

Basic information

species Physcomitrella patens
transcript PP1S264_64V6.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S264_64V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 9
---atgttagttgtac-ttgcaggctggcattctctt--tcttgatatgtctatggtcatctgcatctgaattttgctcgactgatattgggttctgtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCTGTTAACAGTGAATATATAGGTTGTGGTAGTGTAACAAATGAGGTGTTTG
      || |||  || || || ||     ||    |  |   | || |   ||  |  | || ||    |||||| |  |   | |||| ||| | |     ||| || ||||| | |||||||| |  || |||||||| ||||||||  | ||||| |||| ||||||||| | |||||| ||||  ||||||||||| ||||
tctgatttggttcaacattacatgcccaatttgaaatagtgcagctacgaacataatt-tttggatgaccattttgttataacaacattgtgtttttt-----cagGTACGGACATTCAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTG
















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|37841212|gb|BJ599220.1|BJ599220
EST:     CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCG                         ATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
genomic: CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCGgtaggtcttg ... gtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
EST: gi|162255325|gb|FC432051.1|FC432051
EST:     CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCG                         ATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
genomic: CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCGgtaggtcttg ... gtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
EST: gi|37850577|gb|BJ608585.1|BJ608585
EST:     CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCG                         ATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
genomic: CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCGgtaggtcttg ... gtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
EST: gi|37841051|gb|BJ599059.1|BJ599059
EST:     CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCG                         ATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT
genomic: CATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCGgtaggtcttg ... gtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggtcatctgcatctgaattttgctcgactgatattgggttctgtgggtgcagATAAGGACACTGAGAGGACATACCAACGAAAAGAATTTTGTTGGGCTATCTGTTAACAGTGAATATATAGGTTGTGGTAGTGTAACAAATGAGGTGTTTG
                            gactgat  putative branch site (score: 3)
                tgaatttt  TA-rich tract