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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacgcacttctgcttctcctgttctcccactactgcattaaatttttttgtatgttcatagcatcttaaccaatgacctataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGAGGGCGTAACTTGGGTAAAAACCACACATCTGTTCTCGGTTCTTCATACT

Basic information

species Vitis vinifera
transcript Vv00s1274g00010.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s1274g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G06660.1 (Glycine max), 3'ss of exon 4
-gtataacgcacttctgcttctcctgttctcccactactgcattaaatttttt---tgtatgttcatagcatcttaacca--atgaccta--taaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGAGGGCGTAACTTGGGTAAAAACCACACATCTGTTCTCGGTTCTTCATACT
   ||  | | ||||| | |   || ||  || || ||| |   ||   |        |||||| | ||| |  |   ||  ||    |   ||  || |||||||||||||| | ||||||||  | ||  ||||| ||||||||||| | ||||| |||||||||| ||| |   | ||| | || ||| ||||| | |
cccatctctcccttctcccttcactctttcccaaccacttccccaagaataagaaacctatgtt-acagctttgttgacattattgtttggttatgttcagGTGAACCTCTTTATTGATCATTCGAACGTGGTGGATGTGGAGTGCCTCAGGGGGCGCAACTTGGGTAGAAATCTTGCTTCTTTCCTTGGTGCTTCAGATT

upper sequence: Vv00s1274g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G21320.1 (Arabidopsis thaliana), 3'ss of exon 4
gtataacgcactt-ctgcttctcctgttctcccactactgcattaaatttt---tttgtatgttcat-------agcatcttaac-caatgacctataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGAGGGCGTAACTTGGGTAAAAACCACACATCTGTTCTCGGTTCTTCATACT
       | | || ||| | |||  || ||| |  || |   || ||  ||   |||| ||| |||        ||  || || | |   | | |     || ||||||| |||| |||||||||||||||  | |||||| | ||||||||||| || ||| |  |||||||| | |||  |||||||||| |||| || ||||
-------gtatttgctgatactctagtcctctc--tattatttttaaccttctgtttgaatggtcaccctcacaagattcatatctcttcgtcttggtttttcagGTGAATCTCTATGTGGATCATTCTCAGATTATGGATCTCGAGTGCCTCCGTGGTCGTCATCTGGGTAAAGATCACCAATCTGTTCTCAGTTCCTCCTACT
















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|110371140|gb|EC934927.1|EC934927
EST:     CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAG                         GTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
genomic: CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAGgtataacgca ... ataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
EST: gi|110363179|gb|EC926751.1|EC926751
EST:     CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAG                         GTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
genomic: CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAGgtataacgca ... ataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
EST: gi|27584195|gb|CB006890.1|CB006890
EST:     CATCAAGTGCCCAGACCTCTGAGTGGTTCATCAAGCATTATGGTCCCAAG                         GTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
genomic: CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAGgtataacgca ... ataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
EST: gi|32246173|gb|CD711992.1|CD711992
EST:     CATCAAGTGCCCAGACCTCTGAGTGGTTCATCAAGCATTATGGTCCCAAG                         GTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
genomic: CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAGgtataacgca ... ataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
EST: gi|71866679|gb|DT015734.1|DT015734
EST:     CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAG                         GTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA
genomic: CATCAAGTGCCCAGACCTCTGAGTGGTTTATCAAGCACTATGGTCCCAAGgtataacgca ... ataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattaaatttttttgtatgttcatagcatcttaaccaatgacctataaatttagGTGAACCTCTTTGTGGATCATTCTCAAGTCATGGATTTGGAGTGCCTCCGAGGGCGTAACTTGGGTAAAAACCACACATCTGTTCTCGGTTCTTCATACT
                             tcttaac  putative branch site (score: 2)
     aaatttttttgtatgt  TA-rich tract