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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctgagttcattcatgtagaggcttaaatttatgtgcttggcttggtaattagcaccgccactttagatatgtatgcctgatatctttttggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAGCGCGTGGCTGTCAAATATTTTTCGGATGACTGGCCTGGCTTGTCGGCTA

Basic information

species Physcomitrella patens
transcript PP1S56_263V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S56_263V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT3G09800.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------ttctgagttcattcatgtagaggcttaaatttat--gtgcttggcttggtaattagcaccgccactttagatatgtatgcctgatatctttttggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAGCGCGTGGCTGTCAAATATTTTTCGGATGACTGGCCTGGCTTGTCGGCTA
                                              | || ||   ||   | |       |  ||| |  | | ||  ||   |  || | || |  |||| |    ||  |  |  || |   ||   |    |||  |||  | | ||||| |||||  |  | |||||||| ||||| || ||||| ||||||||||| ||||  ||||||||||||||        | || |
gtaagtacatatgcattatatgattgtatttcgtattctgttagaatgtgtgtatgttgccgcaatcatacagctttgtaggagttttactctttttttgg-actggaacttaattactgactttccaatgtacattgaat----agGATTCTTGTCCTTTGGTAAAGAAGATTCTTCTTCTAGACTCTGAAGGAAAGCGTGTGGCTGTCAAGTATTACTCGGATGACTGGCCAACTAATGCCGCCA
















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|18352746|gb|BJ184801.1|BJ184801
EST:     GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGAT                         GTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
genomic: GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGATgtaagcattt ... tggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
EST: gi|18359929|gb|BJ191990.1|BJ191990
EST:     GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGAT                         GTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
genomic: GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGATgtaagcattt ... tggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
EST: gi|67508098|gb|BJ940969.1|BJ940969
EST:     GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGAT                         GTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
genomic: GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGATgtaagcattt ... tggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
EST: gi|162214885|gb|FC391020.1|FC391020
EST:     GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGAT                         GTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG
genomic: GGGTGTTAAACTCGCGACAGTCAGTGTCGATTGTTTTTCTCAAAATGGATgtaagcattt ... tggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtaattagcaccgccactttagatatgtatgcctgatatctttttggtttgcagGTCTCTATTTCGTTGGTGAAGAACGTGATACTTCTAGATTCTGAGGGGAAGCGCGTGGCTGTCAAATATTTTTCGGATGACTGGCCTGGCTTGTCGGCTA
                               gcctgat  putative branch site (score: 4)
                                     tatcttttt  CT-rich tract
                                    atatcttttt  TA-rich tract