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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgattctgaactaaatcttgtgatgatgctgtgtttcag

Basic information

species Arabidopsis thaliana
transcript AT5G05780.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
--------------TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgattc-tgaactaaatcttgtgatgatgctgtgtttcag-----------------------------------------------------------------------
              |||||||||| ||||||||| | || || ||||| || || || || |||||||| |||||||| ||||| ||||||||||| |||||| | | |||   |     |||    | |    || |    || | | |    |  |  || |||||    ||||     |                                                                       
TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgttt-cagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G368908_T03 (Zea mays), 5'ss of exon 6
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgattc-tgaactaaatcttgtgatgatgctgtgtttcag-----------------------------------------------------------------------
|||||||||| ||||||||| | || || ||||| || || || || |||||||| |||||||| ||||| ||||||||||| |||||| | | |||   |     |||    | |    || |    || | | |    |  |  || |||||    ||||     |                                                                       
TGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgttt-cagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 9
-TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagat---ctttactttactctctctcacggc-acacaataatgtg-attctgaactaa-----atcttgtgatgatg-ctgtgtttcag-------
 ||||||||||||| |||||||| || || || || ||||| |||||| | ||||||||||| |||||||||||||| ||||||||||| ||||   ||   ||  | | |    || |    |  | |  | || ||| || | |       || || |||  ||  | || ||  |        
GTGAAAACAAATGATATGATGCTGGTAATATACCTCTCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatacactcccctaaattttgatgcatgtttgctgatttctttgtattttggatttgttatcatattatgaaaataacagttttgtaaggttgga

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA03G07990.1 (Glycine max), 5'ss of exon 8
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagat------ctttactttactctctctcacggcacacaataatgtgattctgaactaaatcttgtgatgatgctgtgtttcag-------------
||||||| ||||| |||||||| || || || || ||||| ||||||   ||||||||||| |||||||||||||| ||||||||||| ||||      |  ||  |   | ||  |  |   ||   |  |  |    |  ||  ||  |   |||  | | |   ||  |              
TGAAAACCAATGATATGATGCTAGTAATATACCTCTCATCTCTCATTAAAAGTGTAATTGCACTCCACAACTTGATTAACAACAAGgtgagatacaatcccctaagtgtgtgtcctttgctttaccttaatagatatgaccaaagaaatccaattgaacaagttagcttatattagcaatggtgag

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 9
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgatt--ctga--actaaatcttgtga---tgatgctgtgtttcag--------------
||||||| ||||| |||||||| || || || || || || |||||| | |||||||| || |||||||||||||| ||||||||||| ||||    |||   ||   | |  | |||   |  | ||   ||  ||||  |||  || || ||    || |    | ||                  
TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatac--actcccctaaattttgctgcatgtatcattgatgtttgctgattactttatattttggatttgttatcatattatgaaaataacagttttg

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 5'ss of exon 9
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactc----------tctctcacggcacacaataatgtgattctga--actaaatcttgtgatg-atgctgtgtttcag-------
||||||||||||| |||||| | ||||| ||||| ||||| ||||| || ||||| || || ||||||||||||||||| |||||||| | ||     |||  |            | | ||| |  | || | |   ||    ||   ||   || ||  | || ||  || |||  |        
TGAAAACAAATGATATGATGTTGGTTATTTATCTTTCATCTCTCATCCGAAGTGTTATAGCTCTCCACAACTTGATCAATAACAAGgtaatatgccctcttctcatatgaatgagttttttcatgcta-actagacattggccttggttacctgattttaagctggatattgagttgaatgttacga

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv02s0025g01490.t01 (Vitis vinifera), 5'ss of exon 9
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacgg---cacacaataatgtgattctgaacta-aatcttgtga--tgatgctgtgtttcag-------------
||||||||||||| |||||| | ||||| ||||| ||||| ||||  || || || || |||||||||||||||||||| |||||||| | ||     | ||   |             ||  |   | ||  ||  ||  ||  | |  | |||  | | | ||  | ||               
TGAAAACAAATGATATGATGTTGGTTATTTATCTTTCATCTCTCACCCGAAGCGTTATAGCGCTCCACAACTTGATCAATAACAAGgtaatataccctccttgaacaaagaagtattttcatgcttgagtggcatattggcctgtagttatctgactttaagttggatatctaaatcaatgttatc

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|124743164|gb|EH834326.1|EH834326
EST:     TTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAG                         TTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTGTGGCCATA
genomic: TTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctt ... tgtgtttcagTTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTGTGGCCATA
EST: gi|86079670|gb|DR375427.1|DR375427
EST:     CATCCCTCATCCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAG                         TTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTGTGGCCATA
genomic: CATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctt ... tgtgtttcagTTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTGTGGCCATA
EST: gi|164103065|gb|EL985801.1|EL985801
EST:     CATCCCTCATCCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAG                         TTACTGAACAAGGAACATGAAAAAGCAGA
genomic: CATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctt ... tgtgtttcagTTACTGAACAAGGAACATGAAAAAGCAGA
EST: gi|164177158|gb|ES023472.1|ES023472
EST:     CATCCCTCATCCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAG                         TTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTG
genomic: CATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctt ... tgtgtttcagTTACTGAACAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTG