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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctcttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagcttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G31300.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31300.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os06g04800.1 (Oryza sativa), 5'ss of exon 2
GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctcttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagcttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag
| ||||| || ||||| || || ||||| || ||||| |||||||| || ||||| |||||||||||||||||||| ||||    ||   ||   | ||  | | |||       ||      || || ||| |   |   |||  ||  || |     ||   ||  |  | |  | | |  |                                                                                     
GAATGTATGTGGCGAACCGTGCATCTGACAAAATTACTCAACTGACTGACAATGTGTACGTCTGCCGCTCTGGATCTgtaagtgcctacatt---gtttagagtcttgggccccctt----ctttatgttgttgcttcgtgtta--ttattatatgctgtaaaaaacatactctcttcattaagca-----------------------------------------------------------------------------------

upper sequence: AT4G31300.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G152775_T04 (Zea mays), 5'ss of exon 2
GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctcttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagcttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag
| ||||| ||||| || || ||||| || |||||||| ||||||||||| ||||| || ||||| ||||||||||| ||||    |  | |      | | ||  | || ||   ||    ||||     || ||| || |||  ||| ||    || |   |   || ||||  |    |   |                                                                                    
GAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACTCAACTGACAGACAATGTGTATGTCTGTCGCTCTGGATCTgtaagtgccattgtct----tctaatgatagtgttgaattatgatgtttga--gtagaagctttttt-cttact----ttgtcggtttgtccctttgacaagttatataaa---------------------------------------------------------------------------------

upper sequence: AT4G31300.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G374881_T02 (Zea mays), 5'ss of exon 2
GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctcttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagcttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag
| ||||| ||||| || || ||||| || |||||||| ||| ||||||| ||||| ||||| || ||||||||||| ||||   |   | |      ||  | | || ||  | |   |  || | |   || |||||| | |  ||| ||   |   ||    | |   |  ||   | |  ||                                                                                    
GAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTgtaagtgttgttgtc-----ttctaatgttattgctctacta--tgatgtttggtagaaactttctt-cttactttgccctttcacaagttattaatgaacattccgt------------------------------------------------------------------------------------

upper sequence: AT4G31300.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv04s0008g02850.t01 (Vitis vinifera), 5'ss of exon 2
GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctc----ttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagc-ttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag
| ||||| || || ||  |||| || || || || ||||| |||||||||||||||||| | || ||||||||||||||| |  ||| |     | |   | ||    |     | || ||||   |||   || |  | |   || ||  ||| |  |   | | || ||| || |                                                                                                 
GAATGTATGTCGCTAACAGAGCATCGGACAAAATCACACAGCTGACAGATAATGTCTACATTTGTCGCTCTGGATCGgtactcctcttttcgaatcattaacttgccctacagctgtgattgaatcgtttaactctctataacattgagaattgatctaaaacatgtttaatttcat-------------------------------------------------------------------------------------------------

upper sequence: AT4G31300.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv11s0065g00320.t01 (Vitis vinifera), 5'ss of exon 2
GTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatctctcttagggatttcatttttgtttttgtttgacctgttctgctgtggaaactgtttagcttgctagacttcttattgaatctcttttgcttactgggtttcttactcgaatgtttgttgttcttgatttacttgcaaatgggatattgattacaacaagctctcttcttgttccttttgcag
|  | || || ||||||||||| || || ||||| || || ||||| |||||||||||| | || || ||||||||||||||  | ||||          |  |    |||  || | |  |  |     ||   |  | |||    |   |||  | ||||||||   |  | |||  ||| ||||  |  ||                                                                           
GAGTTTATGTTGCGAATCGAGCATCCGACAAGATCACGCAGCTGACTGATAATGTCTACTTGTGTCGTTCTGGATCGgtaatgctttctc----------cgct----tttccgtataatgtcatgctaagtttgatttttttgttatataagatctgttattgaaagcccgt-gct--ctgagttttcttttc---------------------------------------------------------------------------

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|116424148|gb|EG466740.1|EG466740
EST:     ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCG                         GCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
genomic: ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatct ... ccttttgcagGCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
EST: gi|164106678|gb|ES157250.1|ES157250
EST:     GACAGATAATGTCTACGTCTGCCGCTCTGGATCG                         GCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
genomic: GACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatct ... ccttttgcagGCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
EST: gi|116444628|gb|EG487220.1|EG487220
EST:     ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCG                         GCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
genomic: ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatct ... ccttttgcagGCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
EST: gi|47831542|gb|CK121226.1|CK121226
EST:     ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCG                         GCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
genomic: ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatct ... ccttttgcagGCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
EST: gi|116444625|gb|EG487217.1|EG487217
EST:     ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCG                         GCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG
genomic: ATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCGgtaataatct ... ccttttgcagGCTGCTGATTCTCAAGTTGTATCTGACTATGTCCGCTACTTCCTTCACCAG