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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G59290.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 8
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag
| ||  |||||||||||||||| || ||||| || || |||||  ||||||||||||| ||||| || |||||||||||| |  ||| || |||    | ||   ||  |     | | ||  ||   ||  |||   | | ||    |||  ||  | | || | |||||
GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaatatttttagttcat--acctttttgtcttgtgatgtactggatt--gtagttctcctta-ataagtattttccaatctatc-tctgtag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 14
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtca------gttttctactt---ccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag----------------
| ||| ||||||| ||||| || || ||||| ||||| || || |||||||||||||| ||||  || |||||||||||| |       | ||  ||||   |   ||  | | |   |||   |  ||||| |   |||||  || |  | || | |||    |  ||  || |  |                  
GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCTGAGACGTTGATGTTTGACTATCACAAGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatattagtagctcatagtcctctttgttatgtgataactctgggcttatgattttttttcttaacagtgtttatcatctatgtctgtag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 9
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttctacttcc--ctaaactc----------actgcatcacttttttctttatccagtgattcc---tttaagattctcat--tggcc-tgtttgtcatttgtag------
| ||| ||||||| ||||| || || ||||| ||||| || |  |||||||||||||| ||||| || |||||||||||| |   |||  ||| |   ||||||           |   |||  |  | ||  ||||    | | ||     ||| |||| |  |  || |  | ||| |||| | |        
GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGATGTTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 8
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtca------gttttctactt---ccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtt--tgtcatttgtag-------------
| ||| ||||||| ||||| || || ||||| ||||| || |  |||||||||||||| ||||| || |||||||||||| |       | ||  ||||   |   ||  | | |   |||      ||||| |   |||||  || |  | || | |||    | ||   |  |||| |               
GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGATGTTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 9
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag------------------------
| ||||| ||||||||||| || || || ||||| ||||| || ||||||||||| ||||| || || ||||| |||||| | |||  |   | | |   ||       ||   |  || | | | ||   || |  |  |||||    || |  | ||      |||| |                        
GAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTGgt-aatttcttgtcttcttttccttgtaatttcttctcattttgtttacacatatccagtagagatttatctttgtttcttaactccttgtggtgtttatgtctcctttcaacatag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagt-----tttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag-------------------------------------------
| ||||||||||| ||||| || |||||||| || || ||||| ||||||||||| || || || || ||||| || ||| | |     | | || ||        || |     ||   | |  || ||  || |   |    |  |  |   |||  ||| |  | | |  ||                                            
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgag-ggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G06980.3 (Glycine max), 5'ss of exon 8
GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattg--gcctgtttgtcatttgtag-------------------------------------
| ||||||||||| ||||| || |||||||| || || ||||| ||||||||||| || || || || || || || ||| | |  |   |||  ||     |   ||| ||  |  || || |       |    |  ||| ||  || ||  |     |  | |    ||                                      
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCACGGAATCGgtaattccttatcttttct----ccttggcaacatctcattgttgagggcacaaacagtagaagttttgcactgccgttaactaataagcaataactcaatgtgatgcttattttcattttttttctctcag

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|125313379|gb|EL327464.1|EL327464
EST:     CGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG                         AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATC
genomic: CGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttc ... tcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATC