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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataattgaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtcatcttatgaaatcccgaatcag

Basic information

species Arabidopsis thaliana
transcript AT1G55520.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 5'ss of exon 8
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataattgaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtcatcttatgaaatcccgaatcag
 ||||| || || ||||| ||  |||||||| ||||||| |  ||||||||||| || || |||||||| ||||| ||||||||| | || ||||| |||||  ||   |   |||  |    ||  ||   ||| || | |     |  || | |      ||  | |  |     ||
TGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGAAGCAACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAAAGgt--tagcagcctttccttt---tgtatattcttgattgcctattcctttttgtatgtctgaatatactgtctttatag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G161418_T06 (Zea mays), 5'ss of exon 6
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgt-aataattgaa-cttctctcaaatgattaaaattgtttccatgaaaatgcttctgtcatcttatgaaatcccgaatcag------
||| || || || ||||| ||  | || ||| |||||||||  ||||||||||| ||  | |||||||| ||||| ||||||||| | |||||||| ||||| | |  |     |||||  || ||| |||| | |    ||||     | ||  | ||   | ||   || |   ||         
CGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtcatttcttcttgcacatgcttaataataccgccatttgctt-ctcttttcccttcatttcatactccattgtttgtag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G149238_T03 (Zea mays), 5'ss of exon 7
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataattga-acttctctcaaatgattaaaattgtttccatgaaaat-gcttctgtcatcttatgaaatcccga-atcag---
||| || || || ||||| ||  | || ||| |||||||||  ||||||||||| ||  | |||||||| ||||| ||||||||| | |||||||| |||||   | |||  | ||||  || ||| |||| | |    |  |     |  ||| |  | || | | | |  ||    |  |   
CGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgt--cagttgtcatttcttgcacatgcttaataataccgctgtttgcttcactttttccttcatttcatactccattgtttgtag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA16G25450.2 (Glycine max), 5'ss of exon 8
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaata------attgaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtc-atcttatgaaatcccgaatcag--------------
 || || ||||| ||||||||  | || ||  | ||||| |  || || || ||  ||||||| ||||| || ||||| |||||| |||| |||||||||||||||       ||  | ||| | |         || || |||   | |      || | |  ||||  |   ||  | | |                 
TGAACCAGAGCTGTTTCCAGGGCTAATCTACCGTATGAAGCAACCTAAAATAGTTTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaatatttttgcttataattccccccctccccccaatttttttggctcactggatttttatttatctgttttcatttccattttttaggtgagagatga

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA16G25450.3 (Glycine max), 5'ss of exon 8
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataatt------gaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtc-atcttatgaaatcccgaatcag---
 || || ||||| ||||||||  | || ||  | ||||| |  || || || ||  ||||||| ||||| || ||||| |||||| |||| ||||||||||||||| ||        | ||| | |         || || |||   | |      || | |  ||||  |   ||  | | |      
TGAACCAGAGCTGTTTCCAGGGCTAATCTACCGTATGAAGCAACCTAAAATAGTTTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaatatttttgcttataattccccccctccccccaatttttttggctcactggatttttatttatctgttttcatttccattttttag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA03G04500.1 (Glycine max), 5'ss of exon 8
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataattgaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtcatcttatgaaatcccgaatcag-------
 || || ||||| ||||||||| | || ||  | ||||| |  ||||| || ||  ||||||| ||||| || ||||| |||||| |||| ||||||||||||| ||||   ||| | |       |  || ||   |||||     || |||  | |  ||||    |  | | ||         
TGAACCAGAGCTGTTTCCAGGACTAATCTACCGTATGAAGCAACCAAAAATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTAACAGGAGCCAAGgtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgttttcaattccattttcag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 5'ss of exon 8
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataa-------ttgaacttctctcaaatgattaaaattgtttccatgaaaatgcttctgtcatcttatgaaatc-ccgaatcag------------------------
 || || ||  | || || || ||||| ||| | |||||||  ||||||||||| |||||||| ||||||||||| || |||||| | |||||||| ||||| ||         |||    |  ||  |||  ||    |  |  | ||   | |   | | |  || |      || |  |||  |                        
TGAACCAGAATTGTTCCCTGGCTTGATCTATCGAATGAAACAACCAAAGATTGTGCTGCTTATCTTTGTGTCAGGGAAAATTGTTCTCACTGGAGCTAAGgtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatat-ttgtcctggatggtcacttaattggaattattttatgtcccaacttcag

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S246_34V6.1 (Physcomitrella patens), 5'ss of exon 7
CGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaa---taattgaacttctctcaaatgattaaaattgtttcca---tgaaaatgcttctgtcatcttatgaaatcccga-atcag----------------------------------------------------------
 || || ||| | || ||||| ||||||||||| ||||| |  || ||||||||| ||||||| || ||||| |||||||||||  | ||||| || ||||||       ||   || | |    | | ||| ||||   |  |   | | |    |||   |   |||| |  |    | | ||                                                           
TGAACCAGAGTTGTTCCCAGGGTTGATATATAGAATGAAGCAGCCCAAGATTGTATTGCTTATCTTCGTGTCTGGAAAGATTGTCCTTACTGGTGCTAAGgtatggccgcttaggctccacattca-gcttataattacgtggaaacttacagcatttcctacgctttataatttgttaataacaatgaaatctattgaattcggaagcttacttccgcatgtatctttcttcttctcttgtag

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|47831853|gb|CK121537.1|CK121537
EST:     TTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACGGGAGCCAAG                         ATGAGAGAAGAGACTTATACCGCATTTGAGAATATCTACCCAG
genomic: TTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCAAGgtaataattg ... cccgaatcagATGAGAGAAGAGACTTATACCGCATTTGAGAATATCTACCCAG