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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGGAAGTAAAGAGCAGGTTTGATCCAAACAATGGAGGAGCAGACCCAAAAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatcttttcttcttctttttttcatttccactataagaaagaaactcatttggttctttgagcag

Basic information

species Arabidopsis thaliana
transcript AT5G40530.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G40530.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA19G08930.1 (Glycine max), 5'ss of exon 7
AGCGGAAGTAAAGAGCAGGTTTGATCCAAACAATGGAGGAGCAGACCCAAAAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatcttttcttcttctttttttcatttccactataagaaagaaactcatttggttctttgagcag-----------------
||| |||||||||||||||||||||||||| | ||||||||||||||| ||| | ||    || ||  |||  || || || || |  || ||   | |||||     || |        |  |||| || |||| | ||  ||  |    ||| |||| |   | | |                 
AGCAGAAGTAAAGAGCAGGTTTGATCCAAATACTGGAGGAGCAGACCCTAAAAAGTTCTCAAATGCTATTTCCGAGCTAGGTTTCAGCTCTGTAAAACAGgtgtggatttgt--------tcatttcgttaccacaacaaataaacatggaattaggttgtgctaactgatatctattccgtgcag

upper sequence: AT5G40530.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA19G08930.2 (Glycine max), 5'ss of exon 7
AGCGGAAGTAAAGAGCAGGTTTGATCCAAACAATGGAGGAGCAGACCCAAAAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatcttttcttcttctttttttcatttccactataagaaagaaactcatttggttctttgagcag---------------------------------------
||| |||||||||||||||||||||||||| | ||||||||||||||| ||| | ||    || ||  |||  || || || || |  || ||   | |||||     || |        |  |||| || |||| | ||  ||  |    ||| |||| |   | | |                                       
AGCAGAAGTAAAGAGCAGGTTTGATCCAAATACTGGAGGAGCAGACCCTAAAAAGTTCTCAAATGCTATTTCCGAGCTAGGTTTCAGCTCTGTAAAACAGgtgtggatttgt--------tcatttcgttaccacaacaaataaacatggaattaggttgtgctaactgatatctattccgtgcaggacttctcaaataaaatgttta

upper sequence: AT5G40530.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA16G07510.1 (Glycine max), 5'ss of exon 8
AGCGGAAGTAAAGAGCAGGTTTGATCCAAACAATGGAGGAGCAGACCCAAAAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatcttttcttcttctttttttcattt--ccactataagaaagaaactcatttggt--tctttgagcag-----
||| ||||| |||||||||||||||||||| |  ||||||||||||||  || | |||   || ||  |||   | || || || |  || ||   | |||||     || |    ||| ||  | ||       |  ||   |  | |      |   |  | |||   |||     
AGCAGAAGTGAAGAGCAGGTTTGATCCAAATACCGGAGGAGCAGACCCTGAAAAGTTTTCAAATGCTATTTCCAAGCTAGGTTTCAACTCTGTGAAACAGgtgaggatttgttcatttcgttactacaacaaataaacatggaattggattgtgctaactgatatttactcagtgcag

upper sequence: AT5G40530.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv14s0066g00390.t01 (Vitis vinifera), 5'ss of exon 6
AGCGGAAGTAAAGAGCAGGTTTGATCCAAACAATGGAGGAGCAGACCCAAAAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatctt-ttcttcttctttttttcatttccacta------taagaaagaaactcatttggttctttgagcag
||| || |||||||| ||||| |||||||  ||||||||||||||||||||    |||   |||||| | ||  | || || |||||    |  | ||||||  | || | ||| |||| | || |  |  |  | ||      |    | |  | |   |   | || || ||||
AGCAGAGGTAAAGAGTAGGTTCGATCCAAGTAATGGAGGAGCAGACCCAAATAGGTTTTCAAAAGCCATCTGCAAGCTAGGTTTTACACTAGAATCAAAGgtttattcatgttcctcttgtcttctagaaataaattaatcctttcttcatgctaattgatacttactatgtgcag

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|116455373|gb|EG497965.1|EG497965
EST:     AAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAG                         GACTTTTCCAATAAGATGTTCATCTTATTCCATTTCAAGAAAAAG
genomic: AAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatctt ... ctttgagcagGACTTCTCCAATAAGATGTTCATCTTATTCCATTTCAAGAAAAAG
EST: gi|116455372|gb|EG497964.1|EG497964
EST:     AAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAG                         GACTTTTCCAATAAGATGTTCATCTTATTCCATTTCAAGAAAAAG
genomic: AAGACTTTGTGAAAGCCGTTTGTGATCTTGGATTTACTTCGGTTTTAAAGgtgcaatctt ... ctttgagcagGACTTCTCCAATAAGATGTTCATCTTATTCCATTTCAAGAAAAAG