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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcacactaatggttactttgttctaggaatgaaacagtgttatttctggttttaggttagacctgtcttacttatctgcagcctatgttcgtggatgttctaatgaaagtgaagcctagtgcttcaaaatctcgagaatgagcccatgatttcccttggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATAGTCACAAACCCTAAG

Basic information

species Physcomitrella patens
transcript PP1S70_254V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S70_254V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT2G18510.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtcacactaatggttactttgttctaggaatgaaacagtgttatttctggttttaggttagacctgtcttacttatctgcagcctatgttcgtggatgttctaatgaaagtgaagcctagtgcttcaaaatctcgagaatgagcccatgatttcccttggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATAGTCACAAACCCTAAG
                                                                               |  | | | | |||    |  | |  |  ||| | |  |     ||  || ||  ||||     |||  ||| | |||   ||   | |  |||||||||||||||| || ||||| |||||||||||||| ||||| ||||| |   | || ||||||
------------------------------------------------------------------------------gtaagtatcttttgtggtagactctgattttgatactctacaaaggtcatttaa--tctcttagctga--cca-ggttttgttttcttttatagGATGTGGATGAGAAGCTCTTGTATGATACTTTCAGTGCATTTGGTGTGATTGCTTCTAATCCTAAG

upper sequence: PP1S70_254V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv04s0023g01470.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtcacactaatggttactttgttctaggaatgaaacagtgttatttctggttttaggttagacctgtcttacttatctgcagcctatgttcgtg-gatgttctaatgaaagtgaagcctagtgct--tcaaaatctcgagaatgagcccatgatttcccttggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATAGTCACAAACCCTAAG
                  ||  | ||||    |||     | | |||||| |  || | ||  ||   | |  ||   |     | ||| |||  ||| || |  || ||| |         ||   ||  |   ||| |  |   ||| ||   ||| | | |||      ||||||||||||||||||||  |||| |||||||||||||| ||||| || || |||||||| || |||
-----------------gtaagtagttc----aattccttatttttatttatttttattgggaagttgtattgtatcaa-----aacctttgtgggtgtgaaggactcatggacagttgttgtatcactagtttcaattttaaagttgaccctg-gatgttctttg------cagGATGTGGATGAGAAACTTCTGTATGATACTTTCAGTGCATTTGGAGTCATTGTCACAAATCCCAAG
















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|100368483|gb|BY967035.1|BY967035
EST:     AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCT                         GATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
genomic: AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCTgtaagtcaca ... ggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
EST: gi|162152540|gb|FC328818.1|FC328818
EST:     AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCT                         GATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
genomic: AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCTgtaagtcaca ... ggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
EST: gi|208375791|gb|DC936731.1|DC936731
EST:     AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCT                         GATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
genomic: AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCTgtaagtcaca ... ggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
EST: gi|208357964|gb|DC938835.1|DC938835
EST:     AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTANATCCT                         GATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA
genomic: AGAAGAGTTTGGATGTTGGTGCGAACTTGTTCGTGGGTAACTTAGATCCTgtaagtcaca ... ggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcctagtgcttcaaaatctcgagaatgagcccatgatttcccttggctgtgcagGATGTGGATGAGAAACTATTGTACGATACTTTCAGTGCCTTTGGCGTGATAGTCACAAACCCTAAG
                                     tttcccttg  CT-rich tract
          ttcaaaat  TA-rich tract