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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcgtactgacctcattctttcaagcttttcaagtgtagtgttctgtctgtcatgtttcgtctgatactgattctgtcggtgtctcggtgcatttcttggtattaagtctcaagtctacatctccaacagttttaaagcaccctgctctaatagaatagtgtcttacgtgtgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCAAATGCTCATGCATATCACATCAATTCCATATCCAACAACAG

Basic information

species Physcomitrella patens
transcript PP1S100_124V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 5
gtagtcgtactgacctcattctttcaagcttttcaagtgtagtgttctgtctgtcatgtttcgtctgatactgattctgtcggtgtctcggtgcatttcttggtattaagtctcaagtctacatctccaacagttttaaagcaccctgctctaatagaatagtgtcttacgtgtgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCAAATGCTCATGCATATCACATCAATTCCATATCCAACAACAG
                                                                                                                                           |     |||||    |    |  |||        |  ||||||| | |   |||  || || ||||   ||||||||||||||||||| || |||||||| ||| ||||||| || ||||| || ||||| |||||
-----------------------------------------------------------------------------------------------------------------------------------------gtatgctgctgctgctttttcttcttgttgctaagctttgctgcagGTTTCTTGCACCGAGACAGCACCTTTTGCCAGATGTAGAAGAGTTTATGCAAATGCCCATACATATCATATAAATTCGATTTCCAATAACAG

upper sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 5
gtagtcgtactgacctcattctttcaagcttttcaagtgtagtgttctgtctgtcatgtttcgtctgatactgattctgtcggtgtctcggtgcatttcttggtattaagtctcaagtctacatctccaacagttttaaagcaccctgctctaatagaatagtgtcttacgtgtgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCAAATGCTCATGCATATCACATCAATTCCATATCCAACAACAG
                                                                                                                    || | |  || |  | |       ||    |  |||  | |   ||  |           ||||||| | |   |||  || || ||||   ||||||||||||||||||| || |||||||| ||| ||||||| || ||||| || ||||| |||||
--------------------------------------------------------------------------------------------------------------------gtatgctgctgctgctgcc-----gctttttcttcttgttgctaagcttt----------gctgcagGTTTCTTGCACCGAGACAGCACCTTTTGCCAGATGTAGAAGAGTTTATGCAAATGCCCATACATATCATATAAATTCGATTTCCAATAACAG
















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|15728932|gb|BI741051.1|BI741051
EST:     TCACTTCATCTTCCCGCG                         CTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA
genomic: TCACTTCATCTTCCCGCGgtagtcgtac ... tgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA
EST: gi|7648411|gb|AW739394.1|AW739394
EST:     GTCACTTCATCTTCCCGCG                         CTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA
genomic: GTCACTTCATCTTCCCGCGgtagtcgtac ... tgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA
EST: gi|15730306|gb|BI741781.1|BI741781
EST:     GTCACTTCATCTTCCCGCG                         CTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA
genomic: GTCACTTCATCTTCCCGCGgtagtcgtac ... tgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacagttttaaagcaccctgctctaatagaatagtgtcttacgtgtgagctgcagCTATGGAGCAATGAAACGGCACTAATTGCCAGATGTAGAAGAGTCTACGCAAATGCTCATGCATATCACATCAATTCCATATCCAACAACAG
                                   gtcttac  putative branch site (score: 3)
                       taatagaata  TA-rich tract