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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgtttttaacctctctctctctctctctctccctctctctctctctcacacacacacacattggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG

Basic information

species Vitis vinifera
transcript Vv08s0007g01340.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g01340.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G17840.2 (Glycine max), 3'ss of exon 7
gtaagttgtttttaacctctctctctctctctctctccctctctctctctctcacacacacacacattggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG
            |||      |     |  |  |  || | |    | || |  |  | ||      |||   | ||||    | | ||| || || | ||         |||   ||| || |||||||| || ||||| ||||||||||| ||||| || ||||| |||||||||||||| || || | |||| | ||
----------cctaaagaagttaagagtgccatttgccttttactaccctgtatcttatacctg---tggctaatttttaagcttatctgtgtgtttaaatcta------tgt---aaatagGGGTGTTCCTCCCGGTGCACGATTTGATCCCTATGGACCTCCTGGTGTTCCTGGTTTTGAACCCAACAAATTTGCAAG

upper sequence: Vv08s0007g01340.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G06650.1 (Glycine max), 3'ss of exon 7
gtaagttgtttttaacctctctctctctctctctctccctctctctctctctcacacacacacacattggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG
            |||      |     |  |  |  || | |    | || |  |  | ||      |||   | || |    | | ||| || |  | ||   |||         ||| || |||||||| || ||||| ||||||||||| ||||| || || || |||||||||||||| || || |||||| | ||
-----------ctaaaggagttaagggttacatttgccttttactaccctgtatcttatacctg---tggctaatttctaagcttatctgtgtgtataaatcctatgt--------aaatagGGGTGTTCCTCCCGGTGCGCGATTTGATCCATATGGACCTCCCGGTGTTCCTGGTTTTGAACCCAACAGATTTGCAAG

upper sequence: Vv08s0007g01340.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G53970.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaag-ttgtttttaacctctctctctctctctctctccctctctctctctctcacacacacacacattggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTT-CCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG
||||  |   | ||    || | | | |         | |   |      |   |||||   | |  |      | | ||||    |  |     |  || || | | |    ||||| |  |   ||   || |||||||| || |||||||||||||| ||||| || ||||| |||||||||||     | || || ||
gtaaaatcactctttctttcacacacacatagagatacacagccatagatttgaacacatgaaaagctctctaaattgtttctgacaagttaccatggatttttgtttgtggttttgacagGGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG

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|349824491|gb|FQ413158.1|FQ413158
EST:     CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC                         AGGTGTTCCACCTGGTGCTCGATTTGAATC-TTATGGCCCACCTGGGCGTT
genomic: CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGA-TCCTTATGGCCCACCTGG-CGTT
EST: gi|110372149|gb|EC936298.1|EC936298
EST:     CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC                         AGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC
genomic: CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC
EST: gi|110718881|gb|EE096218.1|EE096218
EST:     CTGGGTTGGGTGGAGTAAGTGGGAGACCCCAGCTTTCCTGGAGGACA-CC                         AGGTGTTTCACCTGG
genomic: CTGGTTTGG-TGGAGTAGGTGG-AGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTGG
EST: gi|110356854|gb|EC919981.1|EC919981
EST:     GCTGGTTTGGTGGAGTAGGGTGGAGACCCCAGCTTTCCTGGAGGACAACC                         AGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC
genomic: GCTGGTTTGGTGGAGTAGG-TGGAGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC
EST: gi|351023717|gb|FQ448268.1|FQ448268
EST:     CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCCGGAGGACAACC                         AGGTGTTCCCCCTG
genomic: CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTG
EST: gi|349830477|gb|FQ416775.1|FQ416775
EST:     CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC                         AGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC
genomic: CGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACCgtaagttgtt ... tttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaggaatttttccttgagctgggttttaatattggatggcttgtttgaaacagAGGTGTTCCACCTGGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAG
                         ttttaat  putative branch site (score: 3)
                                         cttgttt  putative PPT
                         ttttaatattggat  TA-rich tract