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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacatttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacag

Basic information

species Arabidopsis thaliana
transcript AT2G04550.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g20340.1 (Oryza sativa), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacatttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaat-tatttag-actaatagagtgatatgttttgtgtttcgattacatgacag
| || || || |  || || ||||||||||| || ||||||||||| |||||||||||||| |||| | ||     ||   | |||| |       | || | |  |||| | |   | |    ||| ||| ||   ||| |  |     ||     |                   
AACAGTGCGAAAGAGATAAAGCACGTGTTCTAGTCCATTGCATGTCAGGGAAAAGTAGgtgtgtacgtata-----cttgaattctcgt-------tggcagattttttcatgtttctgcatccaatatatctaatgctactgaaacacaattaccag-------------------

upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g48840.1 (Oryza sativa), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacatttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacag
| || ||||| | ||| |   ||||||||||||| |||||||||||||| ||||  ||||| |       ||     | ||     ||| |  |  |||     || || || ||| |   ||  |||| |   |||  |   ||   |  |||   |                 
AACAGTGTGAAAGGGAGACATCACGTGTTCTTGTCCATTGCATGTCTGGAAAAAACAGgtgtg-------atagcagtgttgtgagcattc--atgttgtta--gcattgttgtgaatg--atcgattaat---acttctctggtacaaaatttccag-----------------

upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G174170_T01 (Zea mays), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacatttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacag
| |||||||||| ||| || ||||| || || || |||||||||||||||||||||||||| |||   |    ||     |  | |||||               |||||||||   | |  | | ||   ||   |  ||  | || |   | |  |                 
AGCAATGTGAGAGGGAGAAAGCACGAGTCCTAGTCCATTGCATGTCTGGGAAAAgtaggtgtgtatggtacatatgtatattttttcatctgggggagctataatctttcttatttctgcactgatttgactaa--tgttatcgcgacactatatcag-----------------

upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G43410.1 (Glycine max), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacatt----tatcattctcttactctcatcct----aaacttg----cggctgctttcttatga-----ttaccattaattatt-tagactaatagag---tgatatgttttgtgtttcgattacatgacag------------------------------------------------------------
| |||||||||||||||||||  |||||||| || ||||||||||| || || ||||||| || | |||     | ||| || | |    |||       | | |||     |  |  |||| | |||     |||    |||  ||  || | ||| || |   ||||||   || |  | |     | |  ||                                                             
AGCAATGTGAGAAGGACAAGGAGCGTGTTCTGGTTCATTGCATGTCAGGAAAGAGTAGgtaag-atattgctgcaacatgctatcataagcatgacggtgacatttggcagtgattagtttcatttgaattagttagtgataaccatcataaaataaaagggaattgatataggttattgtactgcagcctttcaaatgaggaatgcagtatataaatgttattattttctctgaatcacatgtattctacggcag

upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G05570.1 (Glycine max), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgag-tacatttatcattctcttac-tctcatcctaaacttg-cggctgctttctta-tgattaccattaattatt-tagactaatagag---tgatatgttttgtgtttcgattacatgacag------------------------------------------------------------
| |||||||||||||| ||||  |||||||| || ||||||||||| || || ||||||| || ||    |   |   |   || |   ||| ||| | ||  || | | ||   | |  |||    | |   |  || | ||| || |   ||||||   || |  | |     | |  ||                                                             
AGCAATGTGAGAAGGATAAGGAGCGTGTTCTGGTTCATTGCATGTCAGGAAAGAGTAGgtaagatattgctgcaagcgtgcaacatgctatcataagcatgatggttacatttgaactagttagtgatgaccctcataaaataaaagggaattgatataggttattgtactgcagcctttcaaatgaggaatgcaatataaaaatgttataattttctctgaataacatgtatcctatggcag

upper sequence: AT2G04550.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv12s0059g01650.t01 (Vitis vinifera), 5'ss of exon 3
ACCAATGTGAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagta--catttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacag
| |||||||| ||||||||||| ||||||||||| ||||||||||| || |||| ||||||| |    |||    | | | ||| |   ||| | | | |     || |||  |   |       ||  | | | |   ||| |  |    ||        |  |||          
AGCAATGTGAAAAGGACAAGGCTCGTGTTCTTGTACATTGCATGTCGGGAAAAAATAGgtgaattactattgcaaactatgttatttctatcatcatcat-----tgttttggttcaaaagg---tagatgtgtgggacaattgtatcccctgccccacaata-gat----------

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|124711524|gb|EH802926.1|EH802926
EST:     TGTCTGGGAAAAGTAG                         ATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
genomic: TGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
EST: gi|124819225|gb|EH904091.1|EH904091
EST:     TGCATTGCATGTCTGGGAAAAGTAG                         ATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
genomic: TGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
EST: gi|124711706|gb|EH803108.1|EH803108
EST:     GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAG                         ATCACCAGCGG
genomic: GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGG
EST: gi|19876233|gb|AU237064.1|AU237064
EST:     GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAG                         ATCACCANCGGTTG
genomic: GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTG