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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtacctttcaccctaaccctcacctgtatataatttctctagaaagtttgacactttctgtttctcccgtcttcgtgtgcagACCGATAGAGCTGCTATGATCGATGAGATTGTCGATTATGTAAAGTTTCTCAGGCTCCAAGTCAAG

Basic information

species Arabidopsis thaliana
transcript AT4G02590.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0141g00220.t01 (Vitis vinifera), 3'ss of exon 3
gtctgtacctttcaccctaaccctcacctgtatataatttctctagaa--------agtttgacactttctgtt-----tctcccgtcttcgt--gtgcagACCGATAGAGCTGCTATGATCGATGAGATTGTCGATTATGTAAAGTTTCTCAGGCTCCAAGTCAAG
 | |     ||  | |   ||  |||     ||  ||  |    | ||        |  ||| ||     || |     |||   ||| | ||  ||| |||| ||||||||||| ||| | ||||| ||||| |||||||| || || || ||||||||||| |||
-tttaagaattatagctgtacattcatgctcatgcaaaatacagaaaataatgtcgaacttggcatcccatgatactgatctgttgtccttgtttgtgtagACGGATAGAGCTGCAATGCTTGATGAAATTGTGGATTATGTGAAATTCCTAAGGCTCCAAGTAAAG
















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|164228792|gb|ES046579.1|ES046579
EST:     TAGCAGAACGGATCAGGGCGCTGCAGGAACTTGTACCTACTGTGAACAAG                         ACCGATAGAGCTGCTATGATCGATGAGATT
genomic: TAGCAGAACGGATCAGGGCGCTGCAGGAACTTGTACCTACTGTGAACAAGgtctgtacct ... tcgtgtgcagACCGATAGAGCTGCTATGATCGATGAGATT
EST: gi|116435549|gb|EG478141.1|EG478141
EST:     TAGCAGAACGGATCAGGGCGCTGCAGGAACTTGTACCTACTGTGAACAAG                         ACCGATAGAGCTGCTATGATCGATGAGATTGTCGATTATGTAAAGTTTCTC
genomic: TAGCAGAACGGATCAGGGCGCTGCAGGAACTTGTACCTACTGTGAACAAGgtctgtacct ... tcgtgtgcagACCGATAGAGCTGCTATGATCGATGAGATTGTCGATTATGTAAAGTTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atataatttctctagaaagtttgacactttctgtttctcccgtcttcgtgtgcagACCGATAGAGCTGCTATGATCGATGAGATTGTCGATTATGTAAAGTTTCTCAGGCTCCAAGTCAAG
                  gtttgac  putative branch site (score: 4)
                        cactttctgtttctcc  CT-rich tract
               aaagttt  TA-rich tract