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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTTGGTGGCATTGAAGGTTCGGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgcttgaattagaagctccatacttataactatgtcttttgcaatcataattctgcctcaggttgttttaaaatactctttttcgatattgtagcccagagttaatggtgtttatgattttttacgttgcttggagcag

Basic information

species Physcomitrella patens
transcript PP1S88_179V6.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S88_179V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os10g27050.1 (Oryza sativa), 5'ss of exon 5
CTTTTGGTGGCATTGAAGGTTCGGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgcttgaattagaagctccatacttataactatgtcttttgcaatcataattctgcctcaggttgttttaaaatactc-tttttcgatattgtagcccagagttaatggtgtttatgattttttacgttgcttggagcag
|||||||| ||| ||||||| ||  ||| | | || || || ||| | |||||||||||||||||||||||||||     | ||  || |      ||||    || | | | |  ||||   || |    |  |||||  |   ||||||| |      ||   ||  |  |   |                                          
CTTTTGGTTGCACTGAAGGTGCGCTACCCACAGCGGATTACAATCCTTCGTGGAAACCATGAGAGTCGGCAGgtatg-tagatttcatcatg---cccatgag-atgattctattgtttgttttcttttcccgccctcaaataaatttaaaacagaaaccttctcattctaaaatgc------------------------------------------

upper sequence: PP1S88_179V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G112793_T01 (Zea mays), 5'ss of exon 5
CTTTTGGTGGCATTGAAGGTTCGGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgcttgaattagaagctccatacttataac---tatgtcttttgcaatcataattctgcctcaggttgttttaaa-atactctttttcgatattgtagcccagagttaatggtgtttatgattttttacgttgcttggagcag
||  | || ||| | || ||  || ||| | | || || || ||| | ||||||||||||||||||||||||||| || |   |  ||||    ||  || | ||| ||   |   | ||| || |   | ||   |  | |  |      | | | | |   | | | |  ||                                                
CTGCTAGTAGCACTAAAAGTGAGGTACCCACATCGAATTACAATCCTTCGTGGAAACCATGAGAGTCGGCAGgtacaatcaaat--attattttcttgatgcatatgacatcttactttttagctactgttatcaggatttaattgagaccagagaaaattactctagttgctg------------------------------------------------
















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|162205454|gb|FC381552.1|FC381552
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|208373377|gb|DC956481.1|DC956481
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|100390413|gb|BY952821.1|BY952821
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|100411805|gb|BY992350.1|BY992350
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|208388887|gb|DC932915.1|DC932915
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|67569682|gb|BJ942506.1|BJ942506
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|162168511|gb|FC344448.1|FC344448
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
EST: gi|162154645|gb|FC331583.1|FC331583
EST:     GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAG                         ATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA
genomic: GGCACCAAGACCGTATAACCATCTTGCGTGGAAACCATGAGAGTCGGCAGgtaaaaccgc ... cttggagcagATTACTCAAGTGTACGGATTCTATGACGAGTGTCTTCGAAA