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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgatttatttcaagaagtgcctgcttcgttggccatttgtatgttctcctcaaactaacggctggaaaaatactgacgtggatttatggcgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAAAGTTCATTGGCACCCATTGTCGTATTTGCCACTAATCGAGGCATTTGCC

Basic information

species Physcomitrella patens
transcript PP1S4_73V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S4_73V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 7
ttgatttatttcaagaagtgcctgcttcgttggccatttgtatgttctcctcaaactaacggctggaaaaatactgacgtggatttatggcgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAAAGTTCATTGGCACCCATTGTCGTATTTGCCACTAATCGAGGCATTTGCC
                |  |  |  ||   |  |     |  |  | ||  ||||   ||   || |   |      |     || |||   |  | ||||| ||||||||||| ||||| |||||  ||||||||||||||||| | || || ||  |  | || || ||  | ||||| |||||| |||| || ||| 
-------------gtgaccgtatctttaagtttctcaccgactaatgtctgcaaat--actattgcatctaattaatcaaactttaatgcttttttacagGTTCATATGCTAGATATGGAGTGTTTTTCGTATTTGAATCGTGCTTTAGAGAGCTCCCTATCTCCAATAGTAATCTTTGCTACTAATAGAGGAATATGCA

upper sequence: PP1S4_73V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 7
ttgatttatttcaagaagtgcctgcttcgttggccatttgtatgttctcctcaaactaacggctggaaaaatactgacgtggatttatggcgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAAAGTTCATTGGCACCCATTGTCGTATTTGCCACTAATCGAGGCATTTGCC
 ||| |  | ||   || |  ||       |     | || |  | ||  |  | ||||    |  ||||||           || |||   |  ||||||| ||||||||||| ||||| |||||  ||||||| ||||||||| | || || ||  |  | || || ||  | ||||| |||||| |||| || ||| 
gtgact-gtgtctttaaatttctcaccaactaat-gtctgcaaatactattgcatctaatttatcaaaaaat-----------ttaatgtttttttgcagGTTCATATGCTAGATATGGAGTGTTTTTCGTATTTAAATCGTGCTTTAGAGAGCTCCCTATCTCCAATAGTAATCTTTGCTACTAATAGAGGAATATGCA
















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|37832087|gb|BJ590099.1|BJ590099
EST:     TCGTGGATGAG                         GTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
genomic: TCGTGGATGAGgtaaaccaat ... cgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
EST: gi|67728088|gb|BJ978347.1|BJ978347
EST:     TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAG                         GTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
genomic: TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGgtaaaccaat ... cgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
EST: gi|67726395|gb|BJ976654.1|BJ976654
EST:     TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAG                         GTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
genomic: TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGgtaaaccaat ... cgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
EST: gi|162252177|gb|FC425855.1|FC425855
EST:     TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAG                         GTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
genomic: TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGgtaaaccaat ... cgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
EST: gi|162237932|gb|FC412533.1|FC412533
EST:     TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAG                         GTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA
genomic: TTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGgtaaaccaat ... cgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcctcaaactaacggctggaaaaatactgacgtggatttatggcgtactgcagGTGCATATGCTAGACATGGAATGTTTCACGTATTTGAATCGTGCTCTCGAAAGTTCATTGGCACCCATTGTCGTATTTGCCACTAATCGAGGCATTTGCC
                          tactgac  putative branch site (score: 1)
                     aaaaatact  TA-rich tract