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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccactcttttctgttgctttcttgtcttctaacattctgtatatggctgatagctaatataaacaactcttttttttctgcgaaagcagGAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGCCGCCACCGCCATGGTGCCAGAGCCACAACATGCGGGCATCGGGTCAATA

Basic information

species Arabidopsis thaliana
transcript AT3G18210.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G11180.1 (Glycine max), 3'ss of exon 6
------gtatgccactcttttctgttgctttcttgtcttctaacattctgtatatggctgatagctaatataaacaactc-ttttttttctgcgaaagcagGAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGCCGCCACCGCCATGGTGCCAGAGCCACAACATGCGGGCATCGGGTCAATA
      ||  |    | || ||||||   |  ||||     ||  |   |   || |||  | |||| |    | |  |  || |     |  |||||||||| |  | |||||||| |||| | ||||||| |||||| ||||| ||||| || || ||||||||||| ||||| |||||||  ||  ||||||||||  
aatgaagttagttggtgttgtctgttaacta-ttgtagggaaatttatggaccattgctttttgctatttctcataggtggttgtacacttttgaaagcagGAGATCTTTGATTATTCTCATGTCCCTGGACGAGCTGTCCTTCATCGTGGTCGTCATCGCCATGGTGCTAGAGCTACAACATCTGGTAATCGGGTCAACC

upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv17s0000g03110.t01 (Vitis vinifera), 3'ss of exon 6
----gtatgccactcttttctgttgctttcttgtcttctaacattctgtatatggctgat--agctaatataaacaactcttttttttctgcgaaagcagGAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGCCGCCACCGCCATGGTGCCAGAGCCACAACATGCGGGCATCGGGTCAATA
    |||    |  | |||     |  |||   ||       ||||||    |   || |  | | | | |          | || | ||||  || |||||||  | ||| |||| |||| | || ||  |||| |||||||||||||| |||||  | |||||||||||||| ||||||   || ||  |  ||||  
ttgtgtagcttatccatttgataagagttcccttccctgctaattctgacattaattggttgaaccactttttggttgaaatcttgtcctgcataaacagGAAATCTTTGACTATTCTCATGTCCCGGGGAAAGCGGTGCTTCACCGTGGTCGCCATAGGCATGGTGCCAGAGCTACAACAGCTGGTCACAGAATCAACC
















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|164094259|gb|ES072885.1|ES072885
EST:     ATGTGAACACAGCAACAAAGGCAGAT                         GAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGC
genomic: ATGTGAACACAGCAACAAAGGCAGATgtatgccact ... gcgaaagcagGAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgtatatggctgatagctaatataaacaactcttttttttctgcgaaagcagGAAACATATGATTATTGTCATATACCTGGACAAGCTGTGCTTCACCGTGGCCGCCACCGCCATGGTGCCAGAGCCACAACATGCGGGCATCGGGTCAATA
                 agctaat  putative branch site (score: 3)
                                ctcttttttttctgc  putative PPT
                    taatataaacaactct  TA-rich tract