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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctcatctaaaagtaaaagctttttttatatatataattttcatggggtgaagcttatcactttcaatgatatctgtttctctttgtcaactttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTTACTGATATGCCTCTTTCATCATCAGTTGAG

Basic information

species Arabidopsis thaliana
transcript AT4G02590.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G34360.1 (Glycine max), 3'ss of exon 4
tgctcatctaaaagtaaaagctttttttatatatataatttt-----catggg-gtg-aagcttatcactttcaatgatatctgtttctctttgtcaact--ttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTTACTGATATGCCTCTTTCATCATCAGTTGAG
         ||||| |||||  | || | | ||   || |||       | |  |||  |  |||  |||   ||  |  ||   |    |   ||| ||   |   ||||||||||||||||  |||| |||||||||||||| || || ||||| || ||||| || ||  |   ||||||||| |||
---------aaaagcaaaaggctcttctctttagccaaatttggatttgtagctgtgtgaaattaagactgcaaacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACATCCCATT---ATCATCAGTCGAG

upper sequence: AT4G02590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G31510.1 (Glycine max), 3'ss of exon 4
tgctcatctaaaagtaaaagctttttttat--------atatataattttcatggggtgaagcttatcactttcaatgatatctgtttctctttgtcaact--ttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTTACTGATATGCCTCTTTCATCATCAGTTGAG
         ||||| |||||  | || | |        || |  | || |    | |||||  |||  |||    |  |  ||   |    |   ||| ||   |   ||||||||||||||||  |||| |||||||||||||| || || ||||| || ||||| ||   ||  | ||||||||| |||
---------aaaagcaaaaggctcttctctttggccaaatttggatttgtagctgtgtgaaa-ttaagactgcagacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACAT---TCCATTATCATCAGTCGAG
















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|164230561|gb|ES068884.1|ES068884
EST:     TCCAAGTCAAG                         GTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTT
genomic: TCCAAGTCAAGgtatattctt ... actttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTT
EST: gi|116435549|gb|EG478141.1|EG478141
EST:     TGATCGATGAGATTGTCGATTATGTAAAGTTTCTCAGGCTCCAAGTCAAG                         GTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTT
genomic: TGATCGATGAGATTGTCGATTATGTAAAGTTTCTCAGGCTCCAAGTCAAGgtatattctt ... actttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggtgaagcttatcactttcaatgatatctgtttctctttgtcaactttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTTACTGATATGCCTCTTTCATCATCAGTTGAG
                     aatgatat  TA-rich tract