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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATAAGCTTGCACAATTTTCCAGAAGGGATGGCTGTATTTCTCGGATCAATAAAGgtgaggattaaaaaacatgaaaaacagaaaatttcagggagcatgcatgcattctaacaatatatctctatactatttgataacctgtgtcatctacgtattaatatcaatatttgcttgttggattctacttcacag

Basic information

species Arabidopsis thaliana
transcript AT3G20870.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G41580.5 (Glycine max), 5'ss of exon 6
GCATAAGCTTGCACAATTTTCCAGAAGGGATGGCTGTATTTCTCGGATCAATAAAGgtgaggattaaaaaacatgaaaaacagaaaatttcagggagcatgcatgcattctaacaatat-atctctatactatttgataacctgtgtcatctacgtattaatatcaatatttg----cttgttggattctacttca-cag
||||||| |||||||||||||||||||| ||||| || || || |||||  |||||||    || ||   |  |||    |  |    | |           ||  ||| |   || || |  | |||  |||         ||||     ||  || |   |     |||||     ||||   || |   |||| |||
GCATAAGTTTGCACAATTTTCCAGAAGGAATGGCGGTGTTCCTTGGATCCTTAAAGgtacccatgaacctat-tgatgtgcttatggatccgccacattattattaattgttgaaacattacttatattttatccaccttgatgtgcttgtta-atagtgccactttaatttgatgttttgtgacatgcgttttcaacag

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G03820.2 (Glycine max), 5'ss of exon 6
GCATAAGCTTGCACAATTTTCCAGAAGGGATGGCTGTATTTCTCGGATCAATAAAGgtgaggattaaaaaacatgaaaaacagaaaatttcagggagcatgcatgcattctaacaatat-atctctatactatttgataacctgtgtcatctacgtatta-atatcaatatt-tgcttgttggattctacttca-cag
||||||| |||||||||||||||||||| ||||| || || || |||||  |||||||    || ||   |               || |     |  ||  ||  ||| |   |  || |  | |||  |||         | ||     ||   ||   |  ||||| |  || ||||   || ||  |||| |||
GCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAGgtacccatgaacctattgatgtgcttatggatctgcaacattat-tattaattgttgaagcattacttatattgtatccaccctgatatgcttgttaataatggcacttcaatttgatgtttgtgacatgctttttcaacag

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0004g01860.t01 (Vitis vinifera), 5'ss of exon 6
GCATAAGCTTGCACAATTTTCCAGAAGGGATGGCTGTATTTCTCGGATCAATAAAGgtgaggattaaaaaacatgaaaaacagaaaatttcagggagcatgcatgcattctaacaatatatctctat-actatttgataacctgtgtcatctacgtattaa-tatcaatatttgcttgttggattctacttcacag
|||||||||||||||||||||| || || |||||||| || || |||||||| ||||| |    |    | | |  | |  |      ||| |||||  |  |    | |||  ||  | | ||  | ||| |  ||  ||   | || | |  || |||  | |                               
GCATAAGCTTGCACAATTTTCCCGAGGGAATGGCTGTGTTCCTTGGATCAATGAAGgtaatatctg---atcttttacatta------ttctgggagtcttgagatgtgctataaacctttttccttcactgtcagaataca-atctcttatctgttttagctgtt------------------------------

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|86083065|gb|DR378824.1|DR378824
EST:     GATCAATAAA-                         GGCATGCGAGTTGGTGTTAATCT-GCTTTGGCCATCGCTTTACACAACATT
genomic: GATCAATAAAGgtgaggatta ... tacttcacagGGCATGCGAGTTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATT
EST: gi|116403229|gb|EG445821.1|EG445821
EST:     GTATTTCTCGGATCAATAAAG                         GGCATGCGAATTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATT
genomic: GTATTTCTCGGATCAATAAAGgtgaggatta ... tacttcacagGGCATGCGAGTTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATT