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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATTTGTCCTCACCACTCCTCTTTATTACGTTAATGCCCCTCCCCACATGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgtttgtttctcaatcagtctctgacttaaagtttcaatttttaaaggaatcaaagtgttgattttatgttgttatctgtgtag

Basic information

species Arabidopsis thaliana
transcript AT3G55400.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G55400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA10G43550.1 (Glycine max), 5'ss of exon 1
GACATTTGTCCTCACCACTCCTCTTTATTACGTTAATGCCCCTCCCCACATGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgtttgtttctcaatcagtctctgacttaa----agtttcaatttttaaagg--aatcaaagtgttgattttatgttgt--tatctgtgtag----------------------------------------------------
  | ||||||||||| |||||||| |||||||| ||||||||||| ||||||||||||||||||||||| |||||||||||| | |||||||| |||||||||   || || |||  |  |    || |    ||||| |||| |  ||      || || |   ||  |  || |||  || |||| ||                                                     
ACCCTTTGTCCTCACTACTCCTCTCTATTACGTCAATGCCCCTCCTCACATGGGTAGTGCTTACACCACCATCGCCGCCGATGCCATTGCTCGCTTCCAGgttaacttatctatctctaccctcattgattttagtttaaattatgtaactttggtccaattccagaaatgttggtgttttaactgtttattttctcctattagtacataataatataaggtttgcatagttgaatttgacag

upper sequence: AT3G55400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G23250.1 (Glycine max), 5'ss of exon 1
GACA-TTTGTCCTCACCACTCCTCTTTATTACGTTAATGCCCCTCCCCACATGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgtttgtttctcaatcagt-----------ctctgacttaaagtttcaatttttaaaggaatcaaagtgttgattttatgttgttatctgtgtag------
 ||| ||||||||||| || ||||| || ||||| ||||| ||||||||||||||||| ||||||||||| ||||| |||||| | |||||||| |||||||||   ||||| |||  |            | |   ||||| | |  |  |||     |||   ||   ||  |  |  | |  ||  |  ||       
-ACACTTTGTCCTCACTACCCCTCTCTACTACGTCAATGCTCCTCCCCACATGGGTAGCGCTTACACCACCATCGCTGCCGATGCCATTGCTCGCTTCCAGgttcaattctctatctctaccctcattgattttagtttaaattatgtaactttggtccaattccagaaatgggtcgacttggaaattggactaaactgct

upper sequence: AT3G55400.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv13s0019g00810.t01 (Vitis vinifera), 5'ss of exon 1
GACATTTGTCCTCACCACTCCTCTTTATTACGTTAATGCCCCTCCCCACATGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgt---ttgtttctcaatcagtctctgacttaaagtttcaatttttaaaggaatcaaagtgttgattttatgttgttatctgtgtag---------------------
  | || |||||||| ||||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||| || || ||  | |||||||| || |||||    ||||  |  ||   ||| |   ||  | |     |  |  |||| || |     ||| | || ||||   || ||| | |                     
TTCTTTCGTCCTCACGACTCCGCTTTATTACGTAAATGCCCCTCCCCACATGGGAAGTGCCTACACCACTATTGCTGCTGACGCCATTGCTCGATTTCAGgtaccctgttgtttgatt--tcttttgattgtattcggcttcgtggaagggatga-----ttgttattttgttaacatttgtttggttggtgagaaagcggagaaaa

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|86072221|gb|DR367978.1|DR367978
EST:     TGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTTCTCGTTTCCAG                         AGACTGCTTGGTAAGAAGGTTATCTTTATCACAGGAACAGATGAACATGGT
genomic: TGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgtttgtttct ... atctgtgtagAGACTGCTTGGTAAGAAGGTTATCTTTATCACAGGAACAGATGAACATGGT
EST: gi|86072220|gb|DR367977.1|DR367977
EST:     TGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTTCTCGTTTCCAG                         AGACTGCTTGG
genomic: TGGGTAGTGCTTACACCACTATCGCCGCCGATTCAATTGCTCGTTTCCAGgtttgtttct ... atctgtgtagAGACTGCTTGG