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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatgatctcatagttctctcttggaagtttataattgtgaatgcttactcattctctcttttcttcag

Basic information

species Arabidopsis thaliana
transcript AT3G18000.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g47545.1 (Oryza sativa), 5'ss of exon 8
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatgatctcatagttctctcttggaagtttataattgtgaatgcttactcattctctcttttcttcag
 || |||||||||||||| || |||||||||||||||||   |||| ||   ||| | |||||||| || |||||||||||||| ||||| ||||| || |||       | |  ||| ||   |  |       | || || | |      | || || | | |  |     |||
GTGTTCGGTTGAGTTTGAAGTAGCTGATTGCACCACAAAGACCTACGCACCAAATACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATACATgtat---gtttcacttcagagaatttacagatgtttctacaagtatcctacttaacacaat-tatactacgaacag

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatg-atctcatagttctctcttggaagtttataattgtgaatgcttactcattctctcttttcttcag-----------------------
 ||||| ||||||||||| || ||||||||||||| |||    |||||||| ||  ||||||| ||||| ||||| ||||| ||||| || ||||| |||||||     |   ||    ||   | |  ||||| ||||    |  |    | ||| |  |   |    | |  |||                       
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g47540.4 (Oryza sativa), 5'ss of exon 6
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacat------gatctcatagttctctcttggaagtttataattgtgaatgct-tactcattctctcttttcttcag----------------------------------------------------------------------------------------------
 || |||||||||||||| || |||||||||||||||||   |||| ||   ||| | |||||||| || |||||||||||||| ||||| ||||| || |||     ||       ||  | | || | | |||   |   |  || ||   |    | ||||        || |||  |||                                                                                              
GTGTTCGGTTGAGTTTGAAGTAGCTGATTGCACCACAAAGACCTACGCACCAAATACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATACATgtatgtttcacttcagagaatttacagatgtttctacaagtatcctacttaacacaattatactacgaacagctgttcgccagcatagctgatcacgggatacttacctattacaactttgtagttgagttaaccacagaagcaacagtcttacgattgctatacatggttttacag

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G170400_T03 (Zea mays), 5'ss of exon 6
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatgatctcatagttctctcttggaagtttataattgtgaatgcttactcattctctcttttcttcag---------------------------
 ||||| ||||| || || ||||||||||||||||||||  | |||||||| |||   ||||| ||||| |||||||||||||| || || ||||| ||||||       | |    ||| |||  || |      |   | | || | | |||| |    |  |  | || |                              
GTGCTCTGTTGAATTCGAAGTTGCTGATTGCACCACAAAGGATTACCCAGAAAATAGTTTTGACGTCATCTACAGCCGTGACACCATCCTTCACATACAAgtat---gtttcactctataattcaatccttttccgtgtaagtagttactacttatttccacagttatatcatggaatagaagaaatgcatcttcaggtgaaa

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G122296_T01 (Zea mays), 5'ss of exon 8
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactca------acatgat-ctcatagttctct-cttggaagtttataattgtgaatgcttactcattc----tctc-----ttttcttcag----------------------------------------------------------------------------------------
 ||||  ||||||||||| ||||||||||||||||||||    ||||||||  |   |||||||||||| ||||| ||||||||||| || || || ||||||  |       | || || |   |||| || | |||  ||| | |||    |  || |||  ||||      ||        | |||||||                                                                                        
GTGCTTAGTTGAGTTTGAAGTTGCTGATTGCACCACAAAGACATACCCAGACCACATGTTTGATGTCATCTACAGTCGTGACACTATCCTTCATATACAAgtatgctttatacatataatgcatgtagtccttttcttccaagatgatagagctacat-cttgatcatatagaatcatggaaactatcttcagttatagatgtacttattagaaacttgtttatgtcatacctttagttgactgtttaactaacatgccttttctggttttgactctgcag

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatg-atctcatagttctc-tcttggaagtttataattgtgaatgcttactcattctctcttttcttcag----------------------
 ||||| || |||||||| |||||||||||||| || ||    |||||||| ||  | ||||||||||| ||||||||||| ||||| || ||||| || |||     ||   || || |  |||   | |  |   |||  |   |  |    | || |||  |    |||    |                       
TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv17s0000g02430.t01 (Vitis vinifera), 5'ss of exon 8
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatgatctcatagttct---ctcttggaagtttataattgtgaatgcttactcattctctcttt-tcttcag--------------------
 ||||| ||||| || ||||| ||||| |||||||  |||   || || || ||  | |||||||| || |||||||||||||| ||||| ||||| |||||| |  || |    |  |  |      || ||| | | ||||   | ||     ||  | |||||  |||| | |||                      
GTGCTCAGTTGAATTCGAGGTAGCTGACTGCACCAAGAAATCATATCCTGACAACACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATTCAAgtaatatacctttcttttttctgtgggacttttgaatggttatgcatctgttaattttattattctgcctttatattctagttccatttggttcgaaaag

upper sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 5'ss of exon 7
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatgatctcatagttctctcttggaagtttataat----tgtgaatgcttactcattctctcttttcttcag--------------------
  ||| |||||| ||||||||||| ||||||||||  |||   || || |||| | | |||||||| || ||||| |||||||||||||| ||||| |||||| |||     || || |  | |    ||     || |   |    ||||||    ||   |   |||  ||  ||  |                    
TCGCTTGGTTGAATTTGAGGTTGCAGATTGCACCAAGAAAACATATCCTGATAGTACATTTGATGTGATCTACAGTCGTGACACTATTCTTCACATACAAgtaatcattcctatttctttatccgaatttcacgattaaggctgttctgtgaacaactataaagggtcttgttaattttgtgcacattctgttcttttct

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|164149895|gb|ES137389.1|ES137389
EST:     ATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAA                         GACAAACCAGCCTTGTTTAGG
genomic: ATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaaca ... ttttcttcagGACAAACCAGCCTTGTTTAGG
EST: gi|47830346|gb|CK120030.1|CK120030
EST:     ATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAA                         GACAAACCAGCCTTGTTTAGGACTTTCTTCAAATGGCTTAAACCGGGAGGT
genomic: ATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaaca ... ttttcttcagGACAAACCAGCCTTGTTTAGGACTTTCTTCAAATGGCTTAAACCGGGAGGT
EST: gi|47829217|gb|CK118901.1|CK118901
EST:     ATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAA                         GACAAACCAGCCTTGGTTAGGACTTTCTTCAAATGGCTTAAACCGGGAGGT
genomic: ATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaaca ... ttttcttcagGACAAACCAGCCTTGTTTAGGACTTTCTTCAAATGGCTTAAACCGGGAGGT