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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggagatattctttctgagtcatgtccttacaaacctcttatgtgcttgagccatccttttgtctcttaacttgcatctgtttgctctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATCAATTTCAG

Basic information

species Vitis vinifera
transcript Vv14s0066g02600.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0066g02600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g40620.1 (Oryza sativa), 3'ss of exon 5
-------gtatggagatattctttctgagtcatgtccttacaaacctcttatgtgcttgagccatccttttgtctcttaacttgcatctgtttgctctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATCAATTTCAG
        |||  || | |  |||  |  ||| |   ||     | | ||     ||||| |     | || |  |||    ||  | | | ||   | | | |||||||||| || |||||||| ||||| || ||||||||  | ||| ||||||||||||||
gccgcctttatctagttctctttttcg--tcaagctatttt---ctttttgacatcttgatcagatttcttatg-cttgttctgtttgtatatgtattctctgcagTGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATCAATTTCAG

upper sequence: Vv14s0066g02600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G28700.2 (Arabidopsis thaliana), 3'ss of exon 5
----------------------gtatggagat-attctttctgagtcatgtcctt--acaaacctcttatgtgcttgagccat----ccttttgtctcttaacttg-catctgttt-gctctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATCAATTTCAG
                       | ||||  | |    ||  || |  ||    |  |  |   | |  | |     | | ||      |||  ||| ||  | ||   ||| ||| |||  | |  |||| |||||| | || ||||| |||||||||||||||||||| ||||||||||||||||||
gtatgcatcttttgttaaatttctttggaatttaagacttacgaattgtgattatgaatgaggttgtggtctttcaaaacaatgatgtttttcatcttttctcatggtgtctcttttgcttctgtggcagTACCAACATTAATCATTGCTCATGAGTTTTATGATGCTCTTCCAGTTCATCAATTTCAG
















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|110702770|gb|EE079032.1|EE079032
EST:     TGGAACTCCTGTCTCATGGCATGCTGCATTGGAGCAGGTTCCATCTGGAT                         TGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATC
genomic: TGGAACTCCTGTCTCATGGCATGCTGCATTGGAGCAGGTTCCATCTGGATgtatggagat ... ctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATC
EST: gi|30255534|gb|CB971666.1|CB971666
EST:     TGGAACTCCTGTCTCATGGCATGCTGCATTGGAGCAGGTTCCATCTGGAT                         TGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATC
genomic: TGGAACTCCTGTCTCATGGCATGCTGCATTGGAGCAGGTTCCATCTGGATgtatggagat ... ctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgcttgagccatccttttgtctcttaacttgcatctgtttgctctttttccagTGCCAACAATCATTATTGCCCATGAGTTTTATGATGCTCTACCAGTTCATCAATTTCAG
                       tcttaac  putative branch site (score: 2)
                                   tctgtttgctcttttt  putative PPT
                         ttaactt  TA-rich tract