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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttttagtattaataggaattcctgtacacatggccaaatactaagtgatggatttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGGCTGTGATTGGTATTGCCATCCTGTATTCTACATTTTATGTATGGTTGGACG

Basic information

species Arabidopsis thaliana
transcript AT1G16780.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 5
--------------gtttgttttttagtattaataggaattc----ctgtacacatggccaaatactaagtg-atggatttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGGCTGTGATTGGTATTGCCATCCTGTATTCTACATTTTATGTATGGTTGGACG
                ||  |  | ||| |   |   ||       | || ||| |       || ||| || | ||| ||  |||||||||||  |||||| ||||| || || ||| |  ||||||||||||||||||| |||||||| ||  |||| ||| | ||||||||||| |||||||| |
gttaaaccatcattaattcatcatcagtttctgtgaaaacaatgaacagttcac-tatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------gtttgttttttagtatt--aataggaattcctgtacacatggccaaatactaagtgatggatttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGGCTGTGATTGGTATTGCCATCCTGTATTCTACATTTTATGTATGGTTGGACG
                                   |      | |  |||  || |||||   || ||    |     ||||  ||       ||    ||||||||||||||||||||||||| ||||| || || |||||||||||||||||||| |||||| |||||||||| ||| | ||||||||||| ||||||| ||
ttccaggttcattttcctaatagtgaggaaaaaaataacccatcaaaatttaaacaggaaaatctatatttcttttgtaataggaaa----atatcatgtgcagATAGCTGTTCGTGCTGGTGGTTTCTCTGCCCTTGTTGTTGTTGGTATGGCTGTAATTGGTGTTGCCATCCTTTATGCCACATTTTATGTTTGGTTGGGCG
















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|125091206|gb|EL149029.1|EL149029
EST:     ATGTACGGGTTTCCAGTGCTGCTAGACGATCCGCAAGGGAAGCATTGCAG                         ATAGCTGTTCGTGCT
genomic: ATGTACGGGTTTCCAGTGCTGCTAGACGATCCGCAAGGGAAGCATTGCAGgtttgttttt ... tttaatgcagATAGCTGTTCGTGCT
EST: gi|124802506|gb|EH891337.1|EH891337
EST:     CGGGTTTCCAGTGCTGCTAGACGATCCGCAAGGGAAGCATTGCAG                         ATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGG
genomic: CGGGTTTCCAGTGCTGCTAGACGATCCGCAAGGGAAGCATTGCAGgtttgttttt ... tttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaataggaattcctgtacacatggccaaatactaagtgatggatttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGGCTGTGATTGGTATTGCCATCCTGTATTCTACATTTTATGTATGGTTGGACG
                            aaatactaa  TA-rich tract