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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCGGATTATGATGATCCCGTAATCTTATCATCCAAGAAGAGAACAGTAGAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaattaaaatccttaacatttttcttttctctgttatatggttcttgctcaaaagcatcgctcatgaatacttaactaatgatctcctgatacag

Basic information

species Arabidopsis thaliana
transcript AT4G39520.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA06G15180.2 (Glycine max), 5'ss of exon 8
ATCCGGATTATGATGATCCCGTAATCTTATCATCCAAGAAGAGAACAGTAGAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatt-----aaaa----tccttaacatt-tttcttttctctgttatatggttcttgctcaaaagcatcgctcatgaatact-taactaatgatctcctgatacag
|||| |||||||| || || ||||| |||||||| |||||||| ||||| ||||||||||||   || |||||||| |||||||||||||| || ||||||| |||| ||     ||||    || ||| | || || |||  |  ||||   |||||| | |      |  |   | | ||  | | ||  | | |||            
ATCCTGATTATGAAGACCCTGTAATATTATCATCTAAGAAGAGGACAGTTGAGGACTTCTGCGATCGCATTCACAAGGACATGCTTAAACAGTTTAAGTAgtgagtacttctttcaaaacatatctttagctttattccttgacaatgttgagtggttcctccattgt-gtgttaatgaggagcaatgtatatgaagatta----------

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA04G39690.1 (Glycine max), 5'ss of exon 8
ATCCGGATTATGATGATCCCGTAATCTTATCATCCAAGAAGAGAACAGTAGAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaattaaaatccttaacatttttcttttctctgttatatggttcttgct-caaaagcatcgctcatgaatacttaactaatgatctcctgatacag
|||| |||||||| || || ||||| ||||| || |||||||| ||||| ||||||||||||   || |||||||| |||||||||||||| || ||||||| || | ||    |     | || |||   ||   || |  ||  |  | |         ||| |  | | |||    | | |   || |   |||  | 
ATCCTGATTATGAAGACCCTGTAATATTATCCTCTAAGAAGAGGACAGTTGAGGACTTCTGCGATCGCATTCACAAGGACATGCTTAAACAGTTTAAGTAgtgagcacttctcttaaaacatatctttagctttattgcttgataatgttagtgatttctccattgtgcgttaatgaggagcaatgaatatgaagattaa-

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv07s0031g01620.t01 (Vitis vinifera), 5'ss of exon 8
ATCCGGATTATGATGATCCCGTAATCTTATCATCCAAGAAGAGAACAGTAGAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaattaaaatccttaacatttttcttttctctgttatatggttcttgctcaaaagcatcgctcatgaatacttaactaatgatctcctgatacag--
|||| |||||||| ||||| ||||| ||||||||||| | ||| ||||| ||||||||||||| | | || ||||| |||||||| |||||||| |||||||||||  |     |||| | | |   | |  |||    | |    ||||||   |     |  |||| |  |   | | ||||  |       | | |   
ATCCCGATTATGAAGATCCTGTAATTTTATCATCCAAAAGGAGGACAGTTGAGGACTTCTGCAGCAGAATCCACAAGGACATGCTCAAACAATTTAAGTAgtaagtgctctt--tcctaatcttccatgtactctagaattttgatttcttgagaatttttaaagctccttcaccatcatctaagaacaaaaaaaaaaaatt

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: EFJ34569 (Selaginella moellendorffii), 5'ss of exon 7
ATCCGGATTATGATGATCCCGTAATCTTATCATCCAAGAAGAGAACAGTAGAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatta---aaatccttaacatttttcttttctctgttatatggttcttgctcaaaagcatcgctcatgaatacttaactaatgatctcctgatacag
 |||||| || || ||||| || ||  | ||| | |||||| | || || |||||||| ||| |  | || ||||| |||||||| |||||||||||||||||||||   |   | |||  | | || |||          ||| |  |  ||||       || ||   ||                               
GTCCGGACTACGAGGATCCGGTTATACTTTCAGCGAAGAAGCGCACCGTGGAGGACTTTTGCCTGAGAATCCACAAGGACATGCTCAAACAATTCAAGTAgtaagtatccacgcacatctctgaaatctttggagctg--attaaaacgcgcttgtct----gcgtcttccag------------------------------

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|125284963|gb|EL299048.1|EL299048
EST:     GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTA                         CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
genomic: GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatt ... cctgatacagCGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
EST: gi|86076547|gb|DR372304.1|DR372304
EST:     GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTA                         CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
genomic: GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatt ... cctgatacagCGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
EST: gi|164014232|gb|ES126882.1|ES126882
EST:     GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTA                         CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
genomic: GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatt ... cctgatacagCGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
EST: gi|86080003|gb|DR375760.1|DR375760
EST:     GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTA                         CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA
genomic: GAGGACTTCTGCATCCGGATTCACAAAGACATGCTTAAACAATTCAAGTAgtaagtaatt ... cctgatacagCGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAA