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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagccaatcgtttcattttcttcattttacgacctatggagtaattatggattcagagaataacggaaaatgtgtttactaacttaatttctttggattcag

Basic information

species Arabidopsis thaliana
transcript AT5G47540.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G47540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G066051_T01 (Zea mays), 5'ss of exon 4
CTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagccaatcgtttcattttcttcattttacgacctatggagtaattatggattcagagaataacggaaaatgtgtttactaacttaatttctttggattcag
 |  |||||||  ||||| |||||||| |||||||||||||| ||||| ||||| || || || |   | || | ||||  | |  | ||     | ||  |  ||||   ||     ||  |||   || |  ||  ||     || |  |    | | ||   |  || | |   | 
GTATGAGAACATGGACATCGCTTTACATTATGGTGCTATGTTGAGGGAATGTATTCGCCACCAAAGCATTGCAAGgtgatactactgattttaaattttggtagtacg--ttaatatttatatatcacttgattgatcaagattcaa-gcatcacgtcatttgtatcattagcaaaga-

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 3
CTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagccaatcgtttcattttcttcattttacgacctatggagtaattatggattcagagaataacggaaaatgtgtttactaacttaatttctttggattcag
 |  ||||| |  ||||| |||||||| |||||||||||||| ||||| ||||| || || || |   | || | ||||  | |  |  |     |||| ||  || |       |  ||  |||    ||  ||      |   |||     | | | | | |  || || | |    
GTATGAGAATATGGACATTGCTTTACATTATGGTGCTATGTTGAGGGAATGTATTCGCCACCAAAGCATTGCAAGgtgatactactgactttaaatcttgatactatgttaatatgtatatatattatatcgaagttacttgattaataaagattcaagcatcacatcatttgtt----

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G01180.1 (Glycine max), 5'ss of exon 3
CTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagcc--aatcgtttcattttcttcattttacgaccta-tggagtaattatggattcagag-aataacggaaaatgtgtttactaacttaatttctttggattcag
 |  || ||||||||||||||||||||||| ||||| ||||| |||||||| ||  | || |||||||| || |||| ||    ||       ||    |  |||||  |   |  |    |||||    ||| | |  | | |  |   |   ||  |  |||  |||   |||||      
ATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAAgtaagggggaacgaccaaatcaattcaattttgtgtttttctcttttaatttcaaatttaaatcagtcaatgttgaaaggtgga--aacgcaatcattttgg------

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 5'ss of exon 4
CTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagccaatcgtttcattttcttcattttacgac-ctatggagtaattatggattcagagaataacggaaaatgtgtttactaacttaatttctttggattcag
 |  || |||||||||||||||||||| |||||||| ||| | || ||||| || || ||||||| ||| || | || ||| ||      ||    | |||| |    |  | ||     ||   || | |   | || ||  |||| |   ||  ||  || |||   |          
TTATGACAACACAGACATGGCTTTACATTATGGTGCAATGCTGAGAGAGTGCATACGCCATCAGACTGTTGCCAGgtaagctaaaatgaacagggacatcatctggtaattccattcttaaagattgaacttttacaagaaatgaaattactttatcttcctaaatagttaccag-----

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|164166206|gb|ES170443.1|ES170443
EST:     CACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA                         ATATGTTTTGGAGTCTGACCATGTGAAGAAATTCTTTGATTACA
genomic: CACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAAgtgagccaat ... ttggattcagATATGTTTTGGAGTCTGACCATGTGAAGAAATTCTTTGATTACA