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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCACATTCCTCTCTTCCGTGCCCTCTTCCCTCCCTTTCAGAAGTACATCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatatagaagatagtgttgtttttgtagcttgttaatcaaggaaagacttttcttgctgtgtactcaagccatagagttttgtttgatcag

Basic information

species Arabidopsis thaliana
transcript AT4G27440.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA12G35050.2 (Glycine max), 5'ss of exon 4
AGAGCACATTCCTCTCTTCCGTGCCCTCTTCCCTCCCTTTCAGAAGTACATCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatatagaagatagtgttgtttttgtagcttgttaatcaaggaa---agacttttcttgc-tgtgtactcaagccatagagttttgtttgat-cag
||||||||||||  | ||| |  | || |||||||| || ||||||||||| || ||||| |||||||| |||   ||  |||| || |||||||||||||||||||  |  |||    |  |   | || |  | | |  | ||      | |||||     | | || |       |   ||| | ||| ||  ||
AGAGCACATTCCCTTGTTCAGAACTCTGTTCCCTCCATTCCAGAAGTACATAACCAAAGGCTATGTCTCAGAAGATGAAGCAGGAAAGAGACTTGCTCAGgtaatatcaataataaccct-ctagggaagataatgactacaagagtatgaagttttcaaatatctttatttctcatgtgtggttgtcttttatatag

upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S146_112V6.1 (Physcomitrella patens), 5'ss of exon 4
AGAGCACATTCCTCTCTTCCGTGCCCTCTTCCCTCCCTTTCAGAAGTACATCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatatagaagatagtgttgtttttgtagcttgttaatcaaggaa-agacttttcttgctgtgtactcaagccatagagttttgtttgatcag--------
 |||||   | | || |||||  |||||||||||||||| |||||||||||||| || |||||||| || ||   |||||| ||||  ||||| || |||||| |  |   ||   | |  | |  |||      | | ||   |  | || ||  |||   | |       |    |    || |      ||        
CGAGCATTATTCACTATTCCGAACCCTCTTCCCTCCCTTCCAGAAGTACATCACGAAGGGATATGTTTCAGAGGAAGAGTCTGGCAGGAGACTGGCGCAGgtatt-catctgagcat-tcatctgagtattcatctgagcattcatcacacattgtttgaaatatgtcatgtctgctgttcgttctacatctagtacttgat
















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|116431477|gb|EG474069.1|EG474069
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|125277580|gb|EL291665.1|EL291665
EST:     GAGTCAGGCAAAAGAACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: GAGTCAGGCAAAAG-ACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|125232759|gb|EL246844.1|EL246844
EST:     GGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: GGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|164228909|gb|EL973718.1|EL973718
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAG
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAG
EST: gi|164115715|gb|ES195450.1|ES195450
EST:     ACTAAAGGATATGTCGTTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGG
genomic: ACTAAAGGATATGTC--TCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGG
EST: gi|124743196|gb|EH834358.1|EH834358
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCA
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCA
EST: gi|116443985|gb|EG486577.1|EG486577
EST:     TCACTAAAGGATATGTTTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|125075101|gb|EL138796.1|EL138796
EST:     AAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCCGGAAC
genomic: AAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|163982555|gb|EL992270.1|EL992270
EST:     GAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: GAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|125239104|gb|EL253189.1|EL253189
EST:     AAAAGAACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: AAAAG-ACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|124778102|gb|EH868045.1|EH868045
EST:     TCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: TCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|124929995|gb|EL007485.1|EL007485
EST:     AAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: AAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|164063382|gb|ES176059.1|ES176059
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAA-GACTTGCTCAG                         GTGGTGAGTGAT
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGAT
EST: gi|86080046|gb|DR375803.1|DR375803
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|164030285|gb|ES121669.1|ES121669
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGG
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGG
EST: gi|116416037|gb|EG458629.1|EG458629
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|125031860|gb|EL104129.1|EL104129
EST:     AGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
genomic: AGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|164183134|gb|ES091082.1|ES091082
EST:     GTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTAGAAC
genomic: GTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTGGAGCTGGAAC
EST: gi|124709645|gb|EH801047.1|EH801047
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGAT
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGAT
EST: gi|124897098|gb|EH973312.1|EH973312
EST:     TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAG                         GTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTG
genomic: TCACTAAAGGATATGTCTCCGAAACAGAGTCAGGCAAAAGACTTGCTCAGgtaatataga ... gtttgatcagGTGGTGAGTGATCCAAGCTTGACGAAATCAGGGGTTTATTG