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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagtattcctaatttgagttcttgcatgtgattagagcctacggtctcatatcagtacctccttaaattgatttcatcatgcag

Basic information

species Arabidopsis thaliana
transcript AT5G50850.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA14G36540.3 (Glycine max), 5'ss of exon 8
TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagtattcctaatttgagttcttgcatgtgattagagcctacggtctcatatcagtacctcctt--aaattgatttcatcatgcag--------------
|||||||| |  | || |||||| |||||||||| |||||| | ||||||||||| ||||| |||||||| |||||||| ||||||||||| || ||  ||||||| ||  | ||   ||  |||| || |  ||| |||  | ||   | | | |||||| | |  ||  ||||  |||| ||                     
TGAAAGTCTTGTCACCATATTCATCTGAAGATGCCCGTGGTTTGCTTAAAGCTGCTATTAGGGACCCTGATCCTGTTGTTTTCCTTGAAAATGAATTGTTgtaagttgtgctgcttggttt-gttcatgaaaatgagtagt-catagattttgacatcagttcttgtttcaaaatatatttaatttcatgaattatgtcctctag

upper sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G46380.2 (Glycine max), 5'ss of exon 8
TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagtattcctaatttgagttcttgcatgtgattagagcctacggtctcatatcagtacctccttaaattgatttcatcatgcag--------------------------------------------------------
|||||||| |  | || |||||| ||||||||||||||||| | ||||||||||| || || |||||||| |||||||| ||||||||||| || ||  ||||||| ||  | ||    ||| ||||  |     |  | || ||    |      | | |    | | ||| ||| |   ||||  |                                                         
TGAAAGTCTTGTCACCATATTCATCTGAAGATGCTCGTGGTTTGCTTAAAGCTGCTATAAGGGACCCTGATCCTGTTGTTTTCCTTGAAAATGAATTGTTgtaagttgtgctgct----tga-ttctcccgccccaaaaaagactcttttgctgcttgatttgtacatgaaaatgagta-gtcatagattttggcatcagttcttgtttcaaaaaatatttaatttgatgaattatgtcctctag

upper sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA14G02380.2 (Glycine max), 5'ss of exon 8
TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagtatt-cctaatttg---agttcttgcatgtgattagagcctacggtctcatatcagtacctccttaa--attgatttcatcatgcag---------------------------------------------
|||||||| |  | || |||||| ||||||||||||||||| | ||||||||||| || || |||||||| |||||||| ||||||||||| || ||  ||||||| ||  | | | |||     |   |    | |  | | | ||     |  |  ||   | |  |   |    || |||||   ||| |||                                             
TGAAAGTCTTGTCACCATATTCATCTGAAGATGCTCGTGGTTTGCTTAAAGCTGCTATAAGGGACCCTGATCCTGTTGTTTTCCTTGAAAATGAATTGTTgtaagttgtgctgcttgattctcccaccccaaaaaagacacttgtgctgcttgatttgtacatgaaaatgagtggtcatagattttgacat-cagttcttgtttcaaaaaatatttaatttgatggattatgtcctctag

upper sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv17s0000g00690.t01 (Vitis vinifera), 5'ss of exon 8
TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagtattcctaatttgagttcttgcatgtgattagagcctacggtctcatatcagtacctccttaaattga-tttcatcatgcag
|||| || || | ||| |||||| | || || ||||| || ||  | |||||||| || || ||||||||||||||||| |||||||||||||| || |||| ||| || ||  |   ||||| | |  | ||| ||| || |      |   |||      | ||||| | |||| ||||||  |||||
TGAAGGTGCTGGTTCCATATTCATCAGAGGACGCTCGGGGCCTGTTAAAAGCTGCTATAAGGGACCCTGACCCTGTTGTTTTCCTTGAAAACGAATTGCTgttagt-gttttgatg-cttgagatttctc-tgtaattggatc-----attgtatacttactcatccttgagttgaatttcatgctgcag

upper sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv01s0146g00310.t01 (Vitis vinifera), 5'ss of exon 9
TGAAAGTCCTTGCTCCGTATTCAGCTGAAGATGCTCGTGGTCTTCTTAAAGCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagt-attcctaatttgagttcttgcatgtgattagagcctacggtctcatat----cagtacctccttaaattgatttcatcatgcag
||||||| ||  | || |||||| |||| ||||| |||||  | || |||||||| || ||||||||||| |||||| | ||||||||||| ||||| |||||||| || | |   ||    |||  ||| |     |||          | ||||||    || |     |  |  |  | ||  |  | |||
TGAAAGTGCTGTCCCCATATTCATCTGAGGATGCCCGTGGATTGCTAAAAGCTGCTATAAGAGACCCTGATCCTGTTATTTTCCTTGAAAATGAGTTGCTgtaagtcgtcaattgcaa----agtggttgtactatgttatgtttcttcatttcatatttaacattgttatccaacctgaactttgtgcttcag

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|125162637|gb|EL189407.1|EL189407
EST:     ACCCTGTTGTCTTCCTTGAAAACGAGTTACT                         ATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
genomic: ACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagta ... catcatgcagATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
EST: gi|116376958|gb|EG419550.1|EG419550
EST:     GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACT                         ATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
genomic: GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagta ... catcatgcagATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
EST: gi|116376968|gb|EG419560.1|EG419560
EST:     GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACT                         ATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
genomic: GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagta ... catcatgcagATATGGTGAATCATTCCCTATTTCAGAAGAAGCCCTTGATTCAAGTTTCTG
EST: gi|164168536|gb|ES036283.1|ES036283
EST:     GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACT                         ATATGGTGAATCATTCCCTATTTCAGAAGAA
genomic: GCTGCCATTAGAGACCCTGACCCTGTTGTCTTCCTTGAAAACGAGTTACTgtaagtagta ... catcatgcagATATGGTGAATCATTCCCTATTTCAGAAGAA