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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttaccttcactatgaaagaaactatagagaaacccttttttgacctaaaacagaaagtaaaagcattttgttaactgctctttaatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA

Basic information

species Arabidopsis thaliana
transcript AT1G32080.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 3
gtaaagttaccttcactatgaaagaaactatagagaaaccct--tttttgacctaaaacagaaagtaaaagca-ttttgttaactgctcttt-aatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA
    | ||| |||   |   ||   | | || ||   ||  |    | ||       ||  |   |  |   | ||||||| | |  |||||  |   | |||||| | |||||||| ||   | |||| |||||||| |||||||||||  ||||||| ||| | || ||||| |||||||| || || ||||| ||||||||
----atttagcttaggtgcaaatttatcaattgacggacattaacatctgtgtagtgacttagctttgatataattttgttgattcttcttttgacaatcacagGATATTACCTTACTAACTCATCATCTGATCCTGGAGCTGGTGACATTCTAATGGGATTTTTGGGATCTGTTATTCTCTCATTTGCCTTCTCTATGTTCAA

upper sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G15800.1 (Glycine max), 3'ss of exon 4
-gtaaagt-taccttcactatgaaagaaactatagagaaacccttttttgacctaaaacagaaagtaaaagcattttgttaactgctcttta-atggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA
 | | | | |   |   || | |   ||    |  |  || ||  |||   | |||         ||   |  ||||| | | |  |||||  |   | | |||| | |||||||| || | | ||||| ||||||| ||||||||||| |||||||| ||| | || ||||| |||||||| ||  | ||||| ||||| ||
tgcacaatatggttcttctctcatgcaattcttttattaatcccatttcagcataa--tgagccatatttgt-ttttgatgattcttctttctacattcatagGATATTACCTTACAAAGGCATCATCAAATCCTGGAGCTGGTGACATTTTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTTCCTTCTCTATGTTTAA

upper sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 4
gtaaagttaccttcactatgaaagaaactatagagaaacccttttttgacctaaaacagaaag------taaaagcat-----tttgttaactgctct-ttaatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA
     | | ||||  |         || | |   | |    | |||| |  || || | | |       |    | ||     ||| |||| |  ||| |||||    | |||| | |||||||| || | | | ||  ||||||| |||||||||||  ||||||| ||| | || ||||| |||||||| || |||||||||||||||||
-----gattcctttgc-------ataattgtttggtatttttcttttaatttagaatatacatatttcttgctcgtatgtttatttattaattcttctgttaatatgaatagGATATTACCTTACGAAGGCATCTTCTAATCCTGGAGCTGGTGACATTCTAATGGGATTTTTAGGATCTGTTATTCTCTCATTTGCTTTCTCCATGTTCAA

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|125324864|gb|EL338944.1|EL338944
EST:     TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTCTAG                         GAAACTACCTTACCAAA
genomic: TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTACCAAA
EST: gi|124887062|gb|EH965964.1|EH965964
EST:     TGGGTATGCTTCAGGATCTGGACTTGGTCCTG-TTTAG                         GAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAA
genomic: TGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAA
EST: gi|124814890|gb|EH899756.1|EH899756
EST:     CTTTTGGGTTATGCTTCAGGATCTGGACTTGATCCTGTTTTAG                         GAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTA
genomic: CTTTTGGG-TATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTA
EST: gi|125027390|gb|EL099659.1|EL099659
EST:     TTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAG                         GAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAA
genomic: TTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAA
EST: gi|124897315|gb|EH973529.1|EH973529
EST:     TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAG                         GAAACTACCTTA
genomic: TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTA
EST: gi|124957002|gb|EL031875.1|EL031875
EST:     TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAG                         GAA-CTACCTTACCAAAGTAGCATCAGATCCTGGTG
genomic: TGCTCTAGCTTTTGGGTATGCTTCAGGATCTGGACTTGATCCTGTTTTAGgtaaagttac ... atggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacctaaaacagaaagtaaaagcattttgttaactgctctttaatggtgacagGAAACTACCTTACCAAAGTAGCATCAGATCCTGGTGCTGGTGACATCTTAATGGGTTTTCTTGGCTCTGTCATTCTCTCTTTCGCTTTCTCCATGTTCAA
                         attttgttaa  TA-rich tract