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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACTTCTACTTGCAAGAGCATCCGGATATAATCAACGATCTTCTCAACGTACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagctgactgatgactttgtttttttctataaaaacaactgagctacattacttaacaattggtttcttctgatctcag

Basic information

species Arabidopsis thaliana
transcript AT3G08530.1
intron # 25
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 25
GCACTTCTACTTGCAAGAGCATCCGGATATAATCAACGATCTTCTCAACGTACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagctgactg-atgactttgtttttttctataaaaacaactgagctacattactt--aacaattggtttcttctgatctcag
|||||||||  ||||||||||||| ||| | ||||| || |||||||| ||||||||| | || || || |||||  | || || || |||||||| |||||| |   || |  | | | | || | ||  ||||| |      ||  | | ||  | ||  |||  ||   || || |     |||
GCACTTCTATCTGCAAGAGCATCCTGATCTCATCAATGACCTTCTCAATGTACTTGCGCTTCGTTTGGATCATACAAGAGTCGTGGACATAATGCGCAAGgtttgtttcttatggcagggccttctattggtctatcagttttgctctgtttcaaaattttgaactgtttaattattatttgtacag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 25
GCACTTCTACTTGCAAGAGCATCCGGATATAATCAACGATCTTCTCAACGTACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagctgactgatgactttgtttttttctataaaaacaactgagctacattact-taacaattggtttc-ttctgatctcag----
 |||||||||||| |||||||||| ||| | ||||| ||| |||| ||||| |||||  | ||  | |||||| | ||||||||||| || |||||||||||  ||   | | || | |     |||  ||  |||  |     ||     ||| ||| |||        |||  | | || |       
TCACTTCTACTTGGAAGAGCATCCAGATCTTATCAATGATGTTCTGAACGTCCTTGCACTTCGTGTGGACCATGCACGTGTTGTTGACATCATGCGGAAGgtaggatcattagtggtaaaa--atttaattagatattagttgttgcatgccataactctaatgggaaacttcactttaatatgctatag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA14G06340.1 (Glycine max), 5'ss of exon 25
GCACTTCTACTTGCAAGAGCATCCGGATATAATCAACGATCTTCTCAACGTACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagctgactgatgactttgtttttttctataaaaacaactgagctacattac-ttaacaattggtttc-ttctgatctcag--
 |||||||||||| |||||||||| ||| | ||||| ||| |||| ||||| |||||  | ||  | |||||| | ||||||||||| || |||||||||||  || |   | ||   |     |||  ||  |||  |     ||     ||| ||  |||       |||| ||   ||   |   
TCACTTCTACTTGGAAGAGCATCCAGATCTTATCAATGATGTTCTGAACGTCCTTGCACTTCGTGTGGACCATGCACGTGTTGTTGACATCATGCGGAAGgtaggatgaatattggcaaaa--atttcattagatatcagttgttgcatgccataacactaatgggaaatttcattgatatgctatag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 25
GCACTTCTACTTGCAAGAGCATCCGGATATAATCAACGATCTTCTCAACGTACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagctg-actgatgactttgtttttttctataaaaacaactgagctacattacttaacaattggtttcttct-gatctcag--------------------------------------
|||||| ||||||||||||||||| ||| | || || |||||||| || || |||||  | ||  |||||||||||||||| ||||| |||||||||||||||      ||  |||     |||||||  ||   |     |  ||||  ||  ||||||      | |  |||||| ||  |                                         
GCACTTTTACTTGCAAGAGCATCCTGATCTCATTAATGATCTTCTAAATGTGCTTGCACTTCGAGTAGACCATACTCGTGTGGTTGACATAATGCGGAAGgtttttgtttgtgctggcttttttgtttcctttcttctt--cttctgaagtatgttacttgtttccttgactcttctagacgtttatgtactcttttggttatgcgttttttgttggattccag

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|116468291|gb|EG510883.1|EG510883
EST:     TACTTGCG-TGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAG                         GCTGGTCACTTGCGTCTTATCAAGCCATACATGATTGCAGTTCAGAGCAAC
genomic: TACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagct ... ctgatctcagGCTGGTCACTTGCGTCTTATCAAGCCATACATGATTGCAGTTCAGAGCAAC
EST: gi|164096881|gb|ES059314.1|ES059314
EST:     TACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAG                         GCTGGTCACTTGCGTCTTA
genomic: TACTTGCGTTGCGGTTAGACCATACTCGTGTTGTTGATATAATGCGGAAGgttagaagct ... ctgatctcagGCTGGTCACTTGCGTCTTA