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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatattatttgagaatctaggagattgattcatattctcaaaatgtagttgcgttatggttttgttttgtgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA

Basic information

species Arabidopsis thaliana
transcript AT3G10540.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 3
------------gtaagatattatttgagaatctaggagattgattcatattct------caaaatgtagttgcgttatggttttgttttgtgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA
            | ||| | ||| ||   || |||| |  ||  | |||  |        ||  || |      |  |   || || ||| | | || ||||||||||||||||| |||||||| || || |||||    || ||||||||||||||||| || || ||||||||| ||||| | |||||||| |||||||
tttttggaatatggaagctgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaagatttctgatttctatgtg-cagAAAGGTCGTCTATCAGAGGATGAGGCACGATTCTATGCAGCTGAAGTTGTTGATGCTCTCGAATACATACATAATTTGGGAGTCATACATCGTGATATTA

upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 3
------------gtaagatattatttgagaatctaggagattgattcatattct------caaaatgtagttgcgttatggttttgttttgtgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA
            | ||| | ||| ||   || |||| |  ||  | |||  |        ||  || |      |  |   || || ||| | | || ||||||||||||||||| ||| |||| || || |||||    || |||||| | ||||||||||| || ||||||||| ||||| | |||||||| |||||||
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtg-cagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA

upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 4
--------gtaagatattatttgagaatctaggagattgattcatattctcaaaa-tgtagttgcgttatggttttgttttgtg--tttg-------gcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA
         | | || || | |  |  ||| | |  | |      || |  | || || |  |  | ||| ||    |   |||  ||||       ||||||||||||| | || ||| |||||||||| |||||    || |||||||| ||||||||||| ||||| |||| | | ||| ||||||| || |||||||
ttcttgatcttaaat-ttgtctctgcttcttgtatgtggtgcatcatgcctacaactgcaagtttgctattgtaacatccagtgaatttgtgtgagtgcagAAAGGTCGTTTGTCAGAGAATGAAGCTCGCTTCTATGCAGCTGAAGTTGTAGATGCTCTTGAATATATTCATAGTCTAGGATTGATACACCGGGATATTA

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|86070404|gb|DR366161.1|DR366161
EST:     TGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGN                         AAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTT
genomic: TGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGAgtaagatatt ... tgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattcatattctcaaaatgtagttgcgttatggttttgttttgtgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA
 gattgat  putative branch site (score: 4)
                                   ttttgtttt  TA-rich tract