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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatagaccatatcattattgccagatcattgctgcaaagatgtcatatatcgtttgtttaacgttaccttactttgtactgtttttcattggttcaaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGAGCCATCGGAACAAAAATTCTGGAATTCCTCTTTCATTCAAGGCCTGACT

Basic information

species Arabidopsis thaliana
transcript AT4G04850.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 5
ttatagaccatatcattattgccagatcattgctgcaaagatgtcatatatcgtttg-tttaacgttaccttactttgtactgtttttcattggttc-aaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGAGCCATCGGAACAAAAATTCTGGAATTCCTCTTTCATTCAAGGCCTGACT
   |  ||    |||||  | |   ||  ||| |  | |  | | | ||  | ||||   |  | |  ||||| |||    | | ||| |    ||   |||||| | || |  ||    ||||| |||||||||||||| || |||||||||||  | |||||||||||| |||||||||| || || || ||||||||  
--ttgtacttagtcattcattctttatatttgttcaatatttataaaattacatttggccttgcttctccttattttaatttctatttaaacacttttgaagGTTGTATTGTCTACTTTAGCATTTACTGCTTTTGAACTTCCTCCAAATGGAGCTGTTGGAACAAAAATTTTGGAATTCCTTTTCCACTCTAGGCCTGATC

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G06890.1 (Glycine max), 3'ss of exon 4
ttatagaccatatcattattgccagatcattgctgcaaagatgtcatata--tcgtttgtttaacgttaccttactttgtactgtttttcattggttc-aaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGAGCCATCGGAACAAAAATTCTGGAATTCCTCTTTCATTCAAGGCCTGACT
  || |    ||| ||  ||    | | |||  |   ||  |||  || |  | ||  |   |    ||  ||  | |  | | |||   |    ||   |||||| |  | |  ||    ||||| |||||||||||||| || |||||||||||  | |||||||||||| |||||||||| || || || ||||||||  
--attggat-tattatatttagttgtttattctttataaattgttctagaacttgtaaggaaagtactaatttcttcttcaatatttaaaaacacttttgaagGTTGTACTGTCTACTTTAGCATTTACTGCTTTTGAACTTCCTCCAAATGGAGCTGTTGGAACAAAAATTTTGGAATTCCTTTTCCACTCTAGGCCTGATC
















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|125298271|gb|EL312356.1|EL312356
EST:     TTTGCTTTTGGCATGGGACTAACTCAG                         GTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGA
genomic: TTTGCTTTTGGCATGGGACTAACTCAGgtttggttct ... tggttcaaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatcgtttgtttaacgttaccttactttgtactgtttttcattggttcaaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGAGCCATCGGAACAAAAATTCTGGAATTCCTCTTTCATTCAAGGCCTGACT
                     accttac  putative branch site (score: 3)
                                     tttttcatt  putative PPT
        tttgtttaa  TA-rich tract