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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactctagttaatctcgtatggctcttttcatgtagttaatttcattacttgtcgtttctag

Basic information

species Arabidopsis thaliana
transcript AT4G31990.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G33050.4 (Glycine max), 5'ss of exon 3
AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactctagttaatctc----gtatggctcttttcatgtag--ttaatttcattacttgt---cgtttctag-------------------------------------------------------------------------------
 || || || || |||| ||  |   | || ||||||||||| ||||| || ||  | || || ||||| ||||| |||||||||||||||||||| |||||      |    | | ||  |    ||     | ||  | |    |  | |  ||| | || |  ||  |    ||| |||                                                                                
GGCGTTTAAGGCAGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccgtattttatgtgtcttctgtgatttgagtttccctagtttgcattattctcctgtctcatgtttgttcctaattttgcttcatgttcacaaacctagactatttttggattcagttaatgttgatttagatgaaattcttattctttttag

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA14G13480.2 (Glycine max), 5'ss of exon 3
AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactcta-------gttaatctcgtatggctctt--ttcatgtagttaatttcattacttgtcgtttctag--------------------------------------------------------------------------------
 ||||| || |  |||| ||  |   | || ||||||||||| ||||| || ||  | || || ||||| ||||| |||||||||||||||||||| |||||      |  | ||| ||       | |    ||  |  || | |  ||    |||||    |   |  |  | | | |||                                                                                 
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 5'ss of exon 5
AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaact----tgtaactctagttaatctcgtatggctcttttcatgtagttaatttcattacttgtcgtttctag--------------------------------------------------------------
 || |||| ||| |||| ||  | |||||| ||||| ||||| || || || || || || || |||||||| |||||||||||||||||||| || |||||  |   |    | ||   ||   | ||| |  |  | ||  |  ||    ||| |||     | | |  |   ||                                                               
GGCTTTCAGAGCAGACAATAGTGAGATGAAGCTCAACCTTGGAGTCGGGGCCTACCGAACAGAAGAACTCCAACCTTATGTGCTTAATGTTGTCAAGAAGgtcagttttcttttttagaacttaatcatcactaactgatccataaataggattattttttaagccttttatgaatataatcttaatgcttttacttctacttcttcctgatataatagatcgttggtttcattttctag

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ26197 (Selaginella moellendorffii), 5'ss of exon 1
AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactctagttaatc-tcgtatggctcttttcatgtagttaatttcattacttgtcgtttctag
 |||||||| || || ||  |||  |  ||  | |||||||||||||| |||||  | |||||||| || |||||||| |||||||| ||||| || |||||| |    | |  ||    || |   |   |  |||  |||  |   |                          
GGCATTCAAGGCGGATACCGACGCTACTAAGTTGAATCTTGGTGTTGGAGCTTACAGGACTGAGGACCTTCAGCCTTACGTGCTTAAAGTTGTGAACAAGgttcgtttctttgccttagctttacgatttcacagcttgttttctactgcag-----------------------

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ05582 (Selaginella moellendorffii), 5'ss of exon 1
AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactctagttaatc-tcgtatggctcttttcatgtagttaatttcattacttgtcgtttctag
 |||||||| || || ||  |||  |  ||  | |||||||||||||| |||||  | |||||||| || |||||||| |||||||| ||||| || |||||| |    | |  ||    || |   |   |  |||  |||  |   |                          
GGCATTCAAGGCGGATACCGACGCTACCAAGTTGAATCTTGGTGTTGGAGCTTACAGGACTGAGGACCTTCAGCCTTACGTGCTTAAAGTTGTGAACAAGgttcgtttctttgccttagctttacgatttcacagcttgttttctactgcag-----------------------

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|152038432|gb|AV822767.2|AV822767
EST:     CTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAG                         GCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAG
genomic: CTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaactt ... tcgtttctagGCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAG
EST: gi|125010217|gb|EL082486.1|EL082486
EST:     AACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAG                         GCGGAGAATTTGATGTTGGAGAGGGGAGATAACAAAGAG
genomic: AACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaactt ... tcgtttctagGCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAG