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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggcttttttcttatttttggctgtcacctacttgaaattctaacatattcttggtctacag

Basic information

species Arabidopsis thaliana
transcript AT3G06550.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggcttttttcttatttttggctgtcacctacttgaaattc-taacatattcttggtct-acag
 || ||||| |||||||||   ||||| ||||||||||||||||| || || || ||||||||  | || ||||| || ||||||||| | ||||| |||||     ||  | ||   |       ||| |  |||   ||  ||       ||  ||| | |||| || |     | ||||
AATTCGTGTGTTCATTGCTGCATATGTCTGGATGACTGGATTTGGTAACTTCTCCTATTATTATGTGCGGAAGGATTTCAGCCTTGCACGATTTGCTCAGgttcattcttagacccttcattccccttcattcttt---cttccataagtaggaccttcctgacatgttttcaccttgacag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggcttttttcttatttttggctgtcacctacttgaaattctaacata--ttcttggtctacag
 |||||||| ||||| |||   ||||| ||||||||||||||||| ||||| |||||||||||  |  | ||||| || || |||| ||| ||||| |||||   | || |   | ||     | || || ||| |   |  |    |  ||      |||||||   |||    || ||||
AATCCGTGTGTTCATCGCTGCATATGTCTGGATGACTGGATTTGGCAATTTCTCTTATTATTATGTGAGGAAGGATTTCAGTCTTGGAAGATTTGCTCAGgtgc-atctttacacccca---ctgttcctgattctctacactagagttttt------ctaacatggtttcaccttcaacag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggcttttttcttatttttggctgtcacctacttgaaattctaacatattcttggtctacag
 |||||| | |||||||||   |||||||||||||||||||||||||| || || ||||||||  |||| || || ||||| || ||||| ||||| |||||| |   | |       |             |||||     |       |   || |  ||||||||  | |   |   
AATCCGTTTGTTCATTGCTGCATATGTATGGATGACTGGATTTGGGAACTTCTCATATTATTATGTTCGTAAAGATTTTAGTCTAGCAAGATTTGCTCAGgtatgcaatttccttgaactataaaagctgactttttaatatttggtctgtactaactgcaacatattggttgagcag--

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G36550.1 (Glycine max), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggctttttt-cttatttttggctgtcacctacttgaaatt-ctaacatattcttggtctacag
 |||||| | |||||||||   ||||| |||||||||||||||||||| || || ||||||||  |||| || || ||||| || ||||| ||||| |||||| |  | || ||||       |     ||   ||||   | |        || |||  ||   | ||  ||| |   |||
AATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACTTCTCATATTATTATGTTCGTAAAGATTTTAGTCTAGCAAGATTTGCTCAGgtatg--caatttccttgaactataaaagctcgctttttcatatatttggactgtaataactgcaacatatttgttgagcag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagc---tatgtcctcccggcttttttctt--atttttggctgtcacctacttgaaattctaacatattcttggtcta-cag
 |||||  |||| ||||||   ||||| ||||||||||||||||||||||| || || |||||  | ||||| || |||||||||||||||||||| |||||||  ||   ||  ||      | ||  ||| |  | ||    |  | |  | ||     |  ||  |  || || ||  | |||
CATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATTTCTCATACTATTATGTGCGCAAAGATTTTAGCCTTGCAAGGTTTGCTCAGgtaactgcccctaaatctcttaagtttgattcatggagttccatccatgatattctgattctaatagtaagttttttgttgaacag

upper sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S357_34V6.1 (Physcomitrella patens), 5'ss of exon 7
GATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATTTTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagctatgtcctcccggcttttttcttatttttggctgtcac-ctacttgaaattctaacatattcttggt-ctacag-------------------------------------------------------------------------------
 || || ||||| ||||||  ||| || |||||||| || ||||| || |||||||| |||||||||||||| ||||||||| | |   | |||||||||||| |   |  |           |  ||  |     |   | |    |   ||| | |  || | | || | ||  ||||                                                                                 
CATTCGAGTTTTTATTGCTGCCTACGTTTGGATGACGGGGTTTGGCAACTTTTCTTACTATTACATTCGCAAAGACTTTAGCTTGGGCCGTTTTGCACAGgtatgta-tgagcgtcttgaatatgattagtggcggtaattttggtgcgggttgcactgttagcctgttttcggaactacgaattcaagtgttcatgtacctccagttaatgtttttcaaaaatcgaaggggtaccttaatagtgcttgatgatgtgacag

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|125093477|gb|EL151043.1|EL151043
EST:     TTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAG                         ATGATGTGGCGGCTAA
genomic: TTTCTTATTATTACATTCGCAAGGACTTTAGCCTTGCAAGGTTTGCACAGgtaagagcta ... tggtctacagATGATGTGGCGGCTAA