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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcttcaaacttgcataagttaacgttttctttcttatacctttcttcttgcatgttttgaaatcggtaaatttgacagTTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAGAAGGGAACTAACTTAGCAATCAGAGACATGATGTCAAGTGATCCATATG

Basic information

species Arabidopsis thaliana
transcript AT4G05330.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G05330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 4
-gtaaagcttcaaacttgcataagttaacgttttctttcttatacctttcttcttgcatg-----ttttgaaatcgg--taaatttgacagTT---TCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAGAAGGGAACTAACTTAGCAATCAGAGACATGATGTCAAGTGATCCATATG------
    | || || |||||   ||  ||     |   |     | |  | | ||| ||  ||      |||||  |  |  | |  || |  |||    ||||||||||||||||| ||||||||| |||| |||||||   | |  || || ||  | ||||| |||||||| |||||| |||||||||||||||      
tcgcatgcatccaactttactactttggtagtaaatgcaacaaaattattttcgtgagtggtttactttgatgtttgactgatattaatggttaaaacagGAAGGAATGGTAGAATTTATTGGAATGTTAAAGGTGAAAGTGATCAAAGGCACAGATTTAGCTATCAGAGATATGATGACAAGTGATCCATATGTTATCT

upper sequence: AT4G05330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G29940.1 (Glycine max), 3'ss of exon 4
-------------gtaaagcttcaaacttg--cataagttaacgttttctttcttatacctttcttcttgcatgttttgaaatcggtaaatttgacagTTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAGAAGGGAACTAACTTAGCAATCAGAGACATGATGTCAAGTGATCCATATG------
              ||   |||      |    || |    |  || | |||| |      || | |||| ||||||    |  | ||  | ||       ||||||||||||||||| ||||||||| |||| |||||||   | |  || || ||  | |||||  ||||||| |||||| |||||||||||||||      
catgcatccaactttactactttggtagtaattatgaaacgaaattatttttcgtgagtggtt-tacttggatgttt---gactgatatttatggttaaaacagGAAGGAATGGTAGAATTTATTGGAATGTTAAAGGTGAAAGTGATCAAAGGCACAGATTTAGCTGTCAGAGATATGATGACAAGTGATCCATATGTTATCT

upper sequence: AT4G05330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 6
-----gtaa--agcttcaaacttgcataagttaacgt-tttctttcttatacctttcttct-tgcatgttttgaaatcggtaaatttga--cagTTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAGAAGGGAACTAACTTAGCAATCAGAGACATGATGTCAAGTGATCCATATG------
     |||   |    ||   |    | | |  | |  ||||  |  |||    | |  || || ||   |  || ||  | |  |  |    ||  |||||||| |||||||||| ||||||||||||||| || |   | |  |  || |  || |||||| ||||||||||| | ||||||||||| ||||      
gtttggtagctaatgacagtataatctgaatggatgggtttcactggtatttggtgccactgtgaatcaatctaattctctgatctgaaactggtaacagGAAGGCATGGTAGAGTATATTGGATTGTTGAAAGTCAAAGTGATAAGAGGCAAGAATTTAGCAGTCAGAGACATGCTATCAAGTGATCCCTATGTTGTCC

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|125233162|gb|EL247247.1|EL247247
EST:     TGGATAGTTTTCGCACAAATTCATCATCGCAGACGATG                         TTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAG
genomic: TGGATAGTTTTCGCACAAATTCATCATCGCAGACGATGgtaaagcttc ... aatttgacagTTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttctttcttatacctttcttcttgcatgttttgaaatcggtaaatttgacagTTTCAGGAAGGAATGGTAGAGTTTATTGGATTGTTGAAGGTGACTATTAAGAAGGGAACTAACTTAGCAATCAGAGACATGATGTCAAGTGATCCATATG
      tttcttata  TA-rich tract