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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgttctttgacttatggtgtagttttgtcttaaaggatttggttacatagcttttgagttgcttttctaactataatggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG

Basic information

species Physcomitrella patens
transcript PP1S153_101V6.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S153_101V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA19G44090.1 (Glycine max), 3'ss of exon 6
---ccgttctttgacttatggtgtagttttgtcttaaaggatttggttacatagcttttgagttgcttttctaactataatggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG
      |  ||| |   |    |||    |  |  | |     || |||  |   | |    ||  || || || ||   |  |        | | ||  ||| |||||||||| |||||||| |||||||||||||| |||||  |  | || || |||
tacaaataattttaaccaaaa-gtaacagtaacacacatctgctgcttatttcattgtccttttctttgtccaattaatttacaaaaacattttgttg--cagCATAAGTGCTACATTGTTGCAACATGTGATCGGGACTTGAAGAGGAGGATCCGGAAG

upper sequence: PP1S153_101V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA03G41500.1 (Glycine max), 3'ss of exon 5
----ccgttctttgacttatggtgtagttttgtct-taaaggatttggttacatagcttttgagttgcttttctaactataatggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG
     |   |          |    |     ||||     | ||||  ||   |   |||||      ||   | ||   ||    || ||||    ||   ||| |||||||||| |||||||| |||||||||||||| |||||  |  | || || |||
aatttcaaccaaaagtgccagaaacacacacgtctgctgtgtatttcattctcttctttttggtccaattcatttacgcaaaccattttcttgg--aat---cagCATAAGTGCTACATTGTTGCAACATGTGATCGGGACTTGAAGAGGAGGATCCGGAAG

upper sequence: PP1S153_101V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA12G31740.1 (Glycine max), 3'ss of exon 7
ccgttctttgacttatggtgtagttttgtcttaaaggatttggttacatagcttttgagttgcttttctaactata---atggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG
    | |   |   | |   |  |      ||   |    |  || | | |  |||   ||| ||| | |  |||    |   |    ||  | |    |||| | |||||||| |||||||| |||||||||||||| |||||  |  | ||||| |||
ataatttcaaataaaagtaatgataacacattgttgctgcttatttctttgtgtttt--ttgttttcccatttattcacacaaaccattttcttggaa-acagCACAAGTGCTACATTGTTGCAACATGTGATCGGGACTTGAAGAGGAGAATTCGGAAG

upper sequence: PP1S153_101V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA13G38690.2 (Glycine max), 3'ss of exon 7
---ccgttctttgacttatggtgtagttttgtcttaaaggatttggttacatagcttttgagttgcttttctaactataatggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG
      | |||| |  ||    ||| |  |  |    |     || |||  |   || ||  || |     | | |   ||  |    ||  | |    |||| | |||||||| |||||||| |||||||||||||| |||||  |  | ||||| |||
tagaaatactttcaagtaaaa-gtaatgataacacgtatttgctgcttatttc-tttgtgtttttccccctttattcacataaaccatttttttggaa-acagCACAAGTGCTACATTGTTGCAACATGTGATCGGGACTTGAAGAGGAGAATTCGGAAG

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|208359401|gb|DC939140.1|DC939140
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|37822267|gb|BJ580333.1|BJ580333
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|100365650|gb|BY948205.1|BY948205
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|208383700|gb|DC928031.1|DC928031
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|37827579|gb|BJ585591.1|BJ585591
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|208356397|gb|DC914287.1|DC914287
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|208400155|gb|DC904803.1|DC904803
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|162206440|gb|FC383433.1|FC383433
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|208370447|gb|DC952150.1|DC952150
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|208354670|gb|DC918696.1|DC918696
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
EST: gi|37823705|gb|BJ581771.1|BJ581771
EST:     CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA                         AATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT
genomic: CTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGAgtaagactaa ... cgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatagcttttgagttgcttttctaactataatggattccttgatcgatgtacagAATAAGTGCTATATTGTTGCTACATGTGATCGGGATTTGAAACGTCGCATTCGTAAG
                  ttttctaactataat  TA-rich tract