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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtgactctag

Basic information

species Arabidopsis thaliana
transcript AT3G11130.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaaca-attaagttttaa--agtttgccccctccgttgttat-gtttaccctaaaggtca-ttgt--gctcaagaggtaccattgttttatgttgtgactctag
|||||| ||||||||||| || ||||| || || || ||||| ||||| |||||||| ||  ||||||| |||||||| ||  | || ||||||||||||||| |    || ||| || |  | |   |    || | ||| |  ||| | | |  | || |  |||  ||  || |  |     ||||| |              
TGCTCTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCCGCTTTTGCTGAAAGAAGGGAATTTGACAAGATCCTTATATATTCAAAGCAGgtatatttgttcagtattgatgaatcctcattttcagctgtaagagttcagctttgatgtaaactgttggcctaatacat-ttgctgtttcag-------------

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaaca-attaagttttaa--agtttgccccctccgttgttat-gtttaccctaaaggtca-ttgt--gctcaagaggtaccattgttttatgttgtgactctag
|||||| ||||||||||| || ||||| || || || ||||| ||||| |||||||| ||  ||||||| |||||||| ||  | || ||||||||||||||| |    || |||  | |  | |   |    || | ||| |  ||| | | |  | || |  |||  ||  || |  |     ||||| |              
TGCTCTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCCGCTTTTGCTGAAAGAAGGGAATTTGACAAGATCCTTATATATTCAAAGCAGgtatatttgttcagtactgatgaatcctcattttcagctgtaagagttcagctttgatgtaaactgttggcctaatacat-ttgctgtttcag-------------

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 11
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaa--caattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtgactctag
||| || |||||||||||||| || || || || || ||||| ||||| |||||||| ||  | |||||||||||||||||| | || |||||||||||||||       ||  ||| |   |      || |   | |||||   |  |||  |  |  ||||  || ||                              
TGCACTGAAAATATACATCAAGGCCAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAAATACTTATATATTCAAAGCAGgtatgtttgctttggttatgtgga--agtccttttttagttatacctgaccttgaactt-ttgttttccag------------------------------

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G430947_T01 (Zea mays), 5'ss of exon 2
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtg---actctag
||| || ||||||||||| || ||||| || || || ||||| ||||| |||||||| ||  | |||||||||||||| | | |||| || |||||||||||     |||  ||||||  | ||      || |||||| |   |    | |   |||   |  |        | | | |||  | |||| |   |||| | 
TGCACTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAGACACTGATATACTCAAAGCAGgttcgttatttggttttattgattctgttttcagttgttgtaactcatttgagcttcac-attttatttctacaacttggttccaggttgggtacactcca-

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaa----caattaagttttaaagtttgccc-cctccgttgttatgtttaccctaaaggtcattgtgctcaa----gaggtaccattgttttatgttgtgactctag-------------------------------------------------------------------------------------------
|||  ||||||||||||||||||| ||||||||||||||||| ||||| |||||||| ||| |||||||||||||||| ||  |||| || || ||||||||| |       ||| || | |||   | |     |  |||  | || || |  |   | |  |  || | ||        ||   || |    | | | |  | ||                                                                                            
TGCCTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTCTGATATACTCTAAGCAGgtagaagcttgtttatgtatcaaataatactgatttttgttcatctgatt-cttttgtgcttctcttgttaaattctttaatattgttatgacctatagaggttttaattggcctgtataattaacattgcatatcttgcctttgcattttactggaacaaattgtggctgatcattttcattactttttccgctacag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtgac--tctag
|||| ||||||||||||||||||| ||||||||||||||||| ||||| |||||||| ||| |||||||||||||||| ||  | || || || ||||||||| |   ||   | || | || | |         || | | | | |   | |     |||||||      ||   ||| ||| || |||| |    ||| 
TGCTTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTCTAATATACTCTAAGCAGgtagaggcttgtttatttatgtat-caaataatactgatttttgttcatcagattgttttgtgcttctcttgttaaattctttaatattgttatgacctat

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccc-tccgttgttatgtttaccctaaag--gtcattgtgctcaagaggtaccattgttttatgttgtgactctag----------------------------------------------------------------------
|||| |||||||||| |||||||| ||||||||||||||||| ||||| || ||||| ||| | |||||||||||||||||  ||||||| || || |||||      |||  | | ||||  |       |    |     |  ||   ||  |   | || |    ||     |    |     | | |  | |   | |                                                                      
TGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCATTTGCTGAGAGGAGGGAGTTTGACAAAATTCTGATTTACTCTAAACAGgtgcctgcttacttatcaaagaatattgaagtttaatccatagaataatttagtgctattatggcatgcatagcattttgtcaccctgtataattataattgcatgtattgccctttcattttactgtaaacgtttggtcctgaacattgtattacttatttgttgctatag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgcccc--ctccgttgttatgtttaccctaaag--gtcattgtgctcaagaggtaccattgttttatgttgtgactctag----------------------------------------------------------------------
|||| |||||||||| |||||||| ||||||||||||||||| ||||| || ||||| ||| | |||||||||||||||||  ||||||| || || |||||      |||  | | ||||  |       ||   |   ||   | |   ||| |   | || |     |     |    |     | | |  | |   | |                                                                      
TGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCGTTTGCTGAGAGGAGGGAGTTTGACAAAATTCTGATTTACTCTAAACAGgtgcctgtttacttatcaaagaatattgaagcttaatccatagaataattttaatgctattatggcatgtatagcattttgtctacctgtataattatcattgcatgtattgcactttcattttactgtaaacatttggtcctgaacattgtattacttatttgttgctatag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtgactctag-------------------------------------------------------------------
||| || |||||||| || ||||| ||||| ||||| ||||| |||||||| ||||| |||||  ||||||||||||||||  |||| || ||||||||||| || |      | |     || |   ||||       |  | ||   |     || || | |     |  |    || || | ||||   ||| |                                                                     
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttc-tttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag

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|164184287|gb|ES118110.1|ES118110
EST:     ATTGATTTATTCAAAGCAG                         GTTGGGTACACACCTGATTACATGTTTCTTCTGCAAACGATACTCCGTACG
genomic: ATTGATTTATTCAAAGCAGgtaaacaatt ... gtgactctagGTTGGGTACACACCTGATTACATGTTTCTTCTGCAAACGATACTCCGTACG