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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtacttttgtcacacaatcagccatgttggcttcatttctttgtgatctaaagagaagctaatcatttttttgttacag

Basic information

species Arabidopsis thaliana
transcript AT2G40270.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G40270.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G35570.1 (Glycine max), 5'ss of exon 7
TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtactt---------------ttgtcacacaatcagcca-tgttggcttcatttctttgtgatctaaagagaagctaatcatttttttgttacag-
|||| ||| ||||||||  ||||||||||| | || ||||||||||| ||  || | ||||||||||| ||||||||| |||||||||||||||||||  |||||||| |               || | ||| |   |   | |    | || | |    |||   |  |         |   | ||||   ||   | 
TTTGTAAATCTTCTTGGACATTGTGAAGAAGATGAGCCTTTCACCAGAATGGTGGTTTTTGAGTATGCCCCAAATGGAACACTCTTTGAGCATTTACACAgtgagtacctatcattttggtgttattattacatagaaaataaatcaatgattgagtatcctgtatccctatttatgatcatcaacttttaatttgttgg

upper sequence: AT2G40270.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G02850.1 (Glycine max), 5'ss of exon 8
TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtactt----ttgtcacacaatcagccatgttgg-------------cttcatttctttgtgatctaaagagaagctaatcatttttttgttacag-
|||| ||| ||||||||  ||||||||||| | || ||||||||||| ||  || | ||||||||||| || |||||| |||||||||||||||||||  |||||||| |    ||      | || |   |  ||||              || | |  | |||   |  |      |  |   | ||||   ||   | 
TTTGTAAATCTTCTTGGACATTGTGAAGAAGATGAGCCTTTCACCAGAATGGTGGTTTTTGAGTATGCCCCGAATGGAACACTCTTTGAGCATTTACACAgtgagtacctaccatttcggtgctatta-ttacattggaaataaatcaatgattgagtattctgtatccctatttatggtcatcaacttttaatttgttga

upper sequence: AT2G40270.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA14G06230.1 (Glycine max), 5'ss of exon 8
TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtacttt----tgtcacacaatcagccatgttggcttcatttctttgtga-----tctaaagagaagctaatcatttttttgttacag--------
||||  || ||| |||| || ||||||||| |||| ||||||||||| || ||| | ||||| ||||| ||||| ||| |||| ||||||||| ||||  || |||| | |    | | | |  | |  | |  ||      |  |  |    |     | |    || |     ||| || || |    |         
TTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATCTACACAgtaagtaatgtatcattttagagtaactactacattaaggagaaatgctaacaacacactttttctagcatactgtcaattattggccgaaatttgttga

upper sequence: AT2G40270.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G43150.1 (Glycine max), 5'ss of exon 9
TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtacttt-----tgtcacacaatca----gccatgttggcttcatttctttgtgatctaaagagaagctaatcatttttttgttacag--------
||||  || ||| |||| || ||||||||| |||| |||||||||||  | ||| | ||||| ||||| ||||| ||| |||| ||||||||||||||  || |||||| |     | |     ||| |     | | |  |      |  |       |||    || |  |  ||| || || | |  |         
TTTGTCAATCTTATTGGATACTGTGAAGAAGAGGATCCTTTCACCAGAGTGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATTTACACAgtaagtactgtatcattttagagtaattactgcactaaggagaaaggctaacaacacactctttctagcatatggtcaattattagctgaaatttattga

upper sequence: AT2G40270.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 5'ss of exon 8
TTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagta-------cttttgtcacacaatcagccatgttggcttcatttctttgt---gatctaaagagaagctaatcatttttttgtta--cag-----
||||  |||||||| || |||||||||||| |||||||||||||||| ||  || | ||||| |||||||| |||||| | || ||||||||||||||| || || |       |||||      || |     |    | ||| | ||  | ||    |||   | | ||  |    | ||  |   ||  |||     
TTTGTCAACCTTCTCGGATATTGTGAAGAAGAGGAACCTTTCACCAGAATGATGGTTTTTGAATATGCTCCGAATGGAACGCTTTTTGAGCATTTACATAgtaagcatcaaattctttttcttatcattttcttaaaaggactttaatttatggtcaaaatcaggatataacttggcaagttactctatattcagttgat

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|124926827|gb|EL004618.1|EL004618
EST:     CTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATT                         ATAAAGAATCAGAACACTTGGATTGGGGAATGCGGTTAAGAATTGCA
genomic: CTTGATCTTTGAGTATGCTCCAAATGGATCACTCTTTGAGCATTTACATTgtgagtactt ... tttgttacagATAAAGAATCAGAACACTTGGATTGGGGAATGCGGTTAAGAATTGCA