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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGCATTCCCTATCACGGTCATGTTTGGAATGTGCTCGATCTTCCTCTTTGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtctctatgtccatttggctcagggttatctatttgctctagcacgctttccgctgacgataagtatatctctatgtttttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G27720.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27720.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G41090.1 (Glycine max), 5'ss of exon 7
AATGCATTCCCTATCACGGTCATGTTTGGAATGTGCTCGATCTTCCTCTTTGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtct--ctatgtccatttggctcagggttatctatttgctctagcacgctttccgctgacgataagtatatctctatgtttttgcag
 |||||||||||||||| || |||||||| |||||||| || ||||| || || ||  || || | |||||||| || ||| |||||   || || ||||||| |   ||   |||     || | ||||| | | || ||        |  | |    |    | |   ||   ||| | | | ||    |||
GATGCATTCCCTATCACTGTTATGTTTGGCATGTGCTCAATTTTCCTTTTGGTGGCTTGTATCTTGCAAAGGCGACTGATGGTGATTTCGGATAAGCCAAgtaagacctcatgctaatgatatgttgctcaagttgatttaga------aatatgacagcaatgggcttaaaccttatttttgt-ttgaaacag

upper sequence: AT4G27720.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G13760.2 (Glycine max), 5'ss of exon 6
AATGCATTCCCTATCACGGTCATGTTTGGAATGTGCTCGATCTTCCTCTTTGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtctctatgtccatttggctcagggttatctatttgctctagcacgctttccgctgacgataagtatatctctatgtttttgcag
 |||||||||||||||| || |||||||| |||||||| || ||||| || || ||  || || | |||||||| || ||| |||||   || || ||||||| |       |        |  | |   | |||  |   |     |  | |    |    | |   ||   ||| | | | ||    |||
GATGCATTCCCTATCACTGTTATGTTTGGCATGTGCTCAATTTTCCTTTTGGTGGCTTGTATCTTGCAAAGGCGACTGATGGTGATTTCCGATAAGCCAAgtaagaccctcatgctaatgatatgtttttgcttaagttgatttagaaataggacagcaatgggctcaaaccttatttttgt-ttgaaacag

upper sequence: AT4G27720.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv16s0098g01290.t01 (Vitis vinifera), 5'ss of exon 7
AATGCATTCCCTATCACGGTCATGTTTGGAATGTGCTCGATCTTCCTCTTTGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtctctatgtccatttggctcagggttatctatttgctctagcacgctttccgctgacga--taagtatatctctatgtttttgcag--------
||||||||||| ||||| ||||||||||| ||||||||||| ||||||||||| |||  | || | ||||||||||||||| |||||| ||||||  |||||| ||    ||  ||  ||      ||  |  ||| ||       |   ||       ||   | |    ||| |   |  |   || | ||         
AATGCATTCCCCATCACTGTCATGTTTGGCATGTGCTCGATTTTCCTCTTTGTGGCATCTATCTTGCAAAGGCGGCTCATGGTGATTGCTGACAAGTCAAgtaagtataatccttg--caccgtaatcttgcctatgtaacgagctttaaacttagcatgcaagcaagcccagtctcatttgagccttatacatgacatatg

upper sequence: AT4G27720.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv02s0025g02420.t01 (Vitis vinifera), 5'ss of exon 7
AATGCATTCCCTATCACGGTCATGTTTGGAATGTGCTCGATCTTCCTCTTTGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAg--tatgttgtctctatgtccatttggctcagggttatctatttgctctagcacgctttccgctgacgataagtatatctctatgtttt-tgcag-----------
      || || ||||| ||||||||||| ||||||||||| ||||||||||| ||||  ||  | |||||| ||||||||||||||   || |  | |||     ||    ||| |    |  | |   |   | ||        |     | ||||     ||     |  ||      ||||   | || |            
------TTTCCAATCACTGTCATGTTTGGCATGTGCTCGATTTTCCTCTTTGTGGCAACACTGTTGCAAAGGAGGCTCATGATGATTTCAGAGAGCCAAAGATCGAgtaagttctgtaattaccttgaggataatcattctgaaatttggaaatgcttggaattggtttgatttaggatgatatgacatgtgtatcacttatgaat

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|47830344|gb|CK120028.1|CK120028
EST:     TGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAA                         AAACAAATGACTGGACACCCCTTGAAGAAAGAAACACAGAAGAAGATCCCC
genomic: TGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtc ... gtttttgcagAAACAAATGACTGGACACCCCTTGAAGAAAGAAACACAGAAGAAGATCCCC
EST: gi|86083914|gb|DR379673.1|DR379673
EST:     TGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAA                         AAACAAATGACTGGACACCCCTTGAAGAAAGAAACACAGAAGAAGATCCCC
genomic: TGTTGCAAGTCTCCTACAAAGGCGGCTCATGATGATTGTTGACAAACCAAgtatgttgtc ... gtttttgcagAAACAAATGACTGGACACCCCTTGAAGAAAGAAACACAGAAGAAGATCCCC