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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcatagcatcaattttatgaaatcgttgatcatggtgtcaatttgaaaggcaatatgttggttttccatgttgtgtgatggttgaacctttctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCA

Basic information

species Physcomitrella patens
transcript PP1S87_139V6.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S87_139V6.2 (Physcomitrella patens), 3'ss of exon 10
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 3'ss of exon 11
gcatagcatcaattttatgaaatcgt-tgatcatggtgtcaatttgaaaggcaatatgttggttttccatgttgtgtgatggttgaacctttctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCA
        | | ||   ||   |  | | |||  ||| |   || | ||   ||||| |   |     |  |  |    ||  |   | |   |||  ||||  |  |||| ||||| ||||| || || ||||| || ||||| || || |||| ||| |||||||| |||||||||||||| |||||||||||||||||
-------gttagttcactgtcttgttattatcggggtttggtttcgcaaactaatatttacttgagatagctattaacttgcattttcatgattgtggcagATTTGTTGGTCCGGTCACATGAAGTAAAAGATGAAGGTTATGAGGTTGAACATGACGGTAAACTCATAACTGTCTTCTCTGCGCCAAATTACTGTGATCA
















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|37821905|gb|BJ579971.1|BJ579971
EST:     TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAG                         AGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC
genomic: TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAGgtatgccttg ... tctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC
EST: gi|208390866|gb|DC945897.1|DC945897
EST:     TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAG                         AGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC
genomic: TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAGgtatgccttg ... tctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC
EST: gi|22132216|gb|BQ827040.1|BQ827040
EST:     TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAG                         AGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC
genomic: TGCGTTTGGATCAGATGTCACTCACCGTTTCTTGGAAGACAACAATTTAGgtatgccttg ... tctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaggcaatatgttggttttccatgttgtgtgatggttgaacctttctgtaacagAGCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCA
                                         cctttctgt  CT-rich tract
      aatatgtt  TA-rich tract