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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgtgagtgcaattttctgtctgatgactttttttttaatgaactaagtttatctactaacacaatacggtttgagtgtgtag

Basic information

species Arabidopsis thaliana
transcript AT4G28470.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: LOC_Os09g15750.1 (Oryza sativa), 5'ss of exon 23
TGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgtgagtgcaattttctg----tctgatgactttttttttaa-tgaactaagtttatctactaacacaatacggtttgagtgtgtag
||||||| | |||||  |  ||||||| |||||||||||||||||||| || |||||||| || || ||  |||| ||  ||||||   | || ||||||||   |      |||        || |        | |||  | ||| |     ||  | |  ||   |    | |        ||
TGCTGGTCTTGTGACGGTTCTGCATGCCTGCCTTGACATGAAATCCATCATTCTGGGGAAGTACCATTACATGCTTTATATCCTTGCCCTAGCTATGCAGgtatatatctcgttcaaagatcttggtagtggacatattagctaaaccagtcacatggattctcagttttttctctactgaaacag

upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 23
TGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgt--gagtgcaattttctgtctgatgactttttttttaatgaactaagtttatctactaacacaata--cggtttgagtgtgtag-------------
||||||  || | ||  |||||||||| ||||| ||||||||| | ||| | ||||| |||||||||||||| ||||||||||| |||||||| ||||||||  || || | |||  | ||   |  |   |  |  | |   |    |    |   | | || ||   | |||  | | ||||              
TGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAAAGCTATTGTGCTGGGAAAATATCACTATGTTCTCTACTTCCTCGTTTTGGCAATGCAGgtttgattggagtttcatttcctctttccagtcatagactcttccccttcccccattttaaaccattctcagttatattttgtaatttgttgcatcag

upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA12G13410.1 (Glycine max), 5'ss of exon 23
TGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgt------gagtgcaattttctgtctgatgactt----tttttttaatgaactaagtttatctactaacacaatacggtttg-agtgtgtag------
||||||  || | ||  ||||||| |||||||| ||||||||| | ||| |  |||| |||||||||||||| ||||||||||| |||||||| ||||||||      ||||   |||| || | |  || | |    | ||     |   | |  || | | | |  ||   ||   |||| | | ||| |      
TGCTGGATTAATTACCATGTTGCACGCATGCCTAGACATGAAAGCTATTGTGTTGGGAAAATATCACTATGTTCTCTACTTCCTCGTTTTGGCAATGCAGgtttgatcgagtttcatttcctctttcctgtcatagactcttccccttcccccattttaaaccattctca-gttatattttgtaatttgttgctacag

upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 23
TGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgtgagtgc--aattt----------tctgtctg------atgactttttttttaatgaactaa-gtttatc--tactaacaca-atacggtttgagtgtgtag
|||||| ||||| || ||| ||||||||||||||||||||||  |||| ||  |||||||||| || ||||| || ||  ||||||||||||| |||||||| | | |  |||||          | | |||        ||||  ||| |||   || ||   ||||||   ||||   |   ||    |||||   |  ||
TGCTGGAATAGTAACTTTGCTGCATGCATGCCTTGACATGAAGGCCATCATCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattctaaatttgagcacttcatttctctacaatttgtgaccatttgtttttggatcttgtgtttattcttactgttatttatctactttgatgctacag

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|116376321|gb|EG418913.1|EG418913
EST:     TACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAG                         CCAAGGATGATGCTGACGGTGGATCAGAGCCTGAAGCCCATCTCGGTGCCA
genomic: TACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTGGCGATGCAGgtgagtgcaa ... gagtgtgtagCCAAGGATGATGCTGACGGTGGATCAGAGCCTGAAGCCCATCTCGGTGCCA