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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G25350.2
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 5'ss of exon 18
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgta-----------tatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag
| || ||||| |||  ||| ||||| || || ||||| || ||  | |||||||||||||||||||||||||| || ||||||||| | ||  | ||||||||           || |      |||  | | | | |||| |    || ||||| |||   |   ||     |||    |||   |||   ||  | |   
TTCCATTCTCAAGAACTGTCTACATCGAGCAGTCTGATTTTCGTGTAAAGGATTCAAAAGATTATTATGGGCTTGCTCCTGGTAAAACAGTACTACTAAGgtactagtacattatacatctgtagactctgtacttaattagtttgcttactttgtatactttgtggtctcatctatgtttgccgtctgaaactgatag---

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G032049_T01 (Zea mays), 5'ss of exon 18
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgta---tatagaaagggacagttttcatcattactacttttgctttgaatatg----attcagttgtgactaaacgtgcttcctgctgctctttgcag
| |||||||| |||  ||| ||||||||  || |||| || ||  | ||||| |||||||| || |||||||| |||||||||||||||||  ||||||||||   | | || | ||    | |  ||| |   | | | |   ||| |  |     ||      || ||    |||| | |||  |  |  | |   
TTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTAAAGGACTCAAAAGACTACTATGGGCTAGCCCCTGGTAAATCTGTCATGCTAAGgtactttttcgagaaggttgatctgaatc-tagttgcctgtctattgcagctactcaatatgacagtaacatgccgtggtcccttgtattgctag---

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G048012_T01 (Zea mays), 5'ss of exon 17
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatata----gaaagggacagttttcatcattactacttttgctttgaatatg----attcagttgtgactaaacgtgcttcctgctgctctttgcag
| |||||||| |||  ||| ||||||||  || |||| || ||  | ||||| |||||||| || |||||||| |||||||||||||||||  |||||||||| ||     || | ||    | |  ||| |   | ||| |   ||| |  |     ||    | || ||   || || | |||     |  | |   
TTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTTAAGGACTCAAAAGACTACTATGGGCTGGCCCCTGGTAAATCTGTCATGCTAAGgtacattttccgagaaggttgatctgaatc-tagttgcttatctattgcagctactcaatatgatggtaacatgacatggtcccttaaattactag---

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA10G41920.1 (Glycine max), 5'ss of exon 19
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag
|  | || || |  |||||||| ||||| || || |||||||| ||| | |||||||||||||||||||| || || ||||| ||||||||  | || ||||   ||||| || |||         |||  || | |   |  |||| |     ||     | ||  |    ||     |  | | |||||
TTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCAGgttagtagaa-ggcacaa--------attgatattgtgagtgagaattta---taggcccaa-tattcaaaattttcattattttgtgcag

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA20G25120.2 (Glycine max), 5'ss of exon 19
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag
| || || || |  |||||||| ||||| || || |||||||| ||| | |||||||||||||||||||| || || ||||| ||||||||  | || ||||   ||||| || |||  ||     |||   | |     |||  |   | | ||||  | |  |||     ||     |  | | |||||
TTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCAGgttagtagaa-ggtacaaatt--gatattgtgaatgagaatttata---ggtccagtattca--aaa-----ttttcattattttgtgcag

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 5'ss of exon 19
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag
| || || || | | ||||||||||||| || ||||| || || ||||||||||||||||| || |||||||| || ||||| ||||| ||  | || |||||  |  |||   | ||   |  |  ||  |   ||  |||        || |  ||   | | |   | |||  |  |||    |||||
TGCCCTTTTCCAAAATTGTATACATTGAGCAGTCTGATTTTCGGATGAAGGATTCAAAAGACTACTATGGGCTTGCTCCTGGAAAATCCGTCCTACTCAGgtacttgtaaaattatagaagttgtattttttttattcacttgttcagatatcccattaaaattgagaat-ctttttcatgc---atgcag

upper sequence: AT1G25350.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 5'ss of exon 19
TACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaaagggacagttttcatcattactacttttgctttgaatatgattcagttgtgactaaacgtgcttcctgctgctctttgcag
| || || ||||   |||| |||||||| ||  |||| || || ||||| ||||| |||||||| |||||||| || ||||||||||||||  |||| |||||| || |   |   |  |||    ||| | | | |    |||| ||| |   ||  |    |  |     ||| |  ||| |   |   
TTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCAGgtatctata---gtttaaatttg--tatttccaatcta--cttgagtataagaaagcagaagattgagaattttcttcatgcacgcag---

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|124889217|gb|EH968119.1|EH968119
EST:     GATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAG                         ATATGCTTTCCCAATCAAGTG
genomic: GATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaa ... ctctttgcagATATGCTTTCCCAATCAAGTG
EST: gi|164093397|gb|ES070540.1|ES070540
EST:     GGCTCACCCCTGGTAAATCTGTTTTGCTAAG                         ATATGCTTTCCCAATCAAGTGCACCAATGTTGTCTTTGC
genomic: GGCTCGCCCCTGGTAAATCTGTTTTGCTAAGgtatatagaa ... ctctttgcagATATGCTTTCCCAATCAAGTGCACCAATGTTGTCTTTGC