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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaatttccatttttattttattttttaaaaaacttccaatgacatctcagtagcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG

Basic information

species Vitis vinifera
transcript Vv04s0008g05570.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 5
gtagaatttccatttttattttattttttaaaaaacttccaatgacatctcagtagcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
||| || |    | ||| ||  |   | |||    ||||||    | |  ||  | |||       |  ||||||| |    |||||||  |  ||| ||||||||||||||||||||||||||||| |||||||| ||||
gtaaaagtagtttcttt-ttccaacatataatgttcttcca----cgttacaaaatctt-----tctgattagatgtt--ctttttcttcccatagGAAAATCTAGTGGCCTTAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 5
gtagaatttccatttttattttattttttaaaaaacttccaatgacatctcagtagcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
           |      ||   ||||  || | |     | ||   | ||| | |    |  ||||||| |   | || | ||||  || |  ||| |||||||||||||| |||||||||||||| |||||||| ||||
---------gtaaagcagttcctttttccaacatat----agtgttctttca-tcgtacaaaatctttctgatcagatgttctttttcttccatagGAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G07030.1 (Glycine max), 3'ss of exon 5
gtagaattt-ccatttttattttattttttaaaaaacttccaatgacatctca--gtagcttgatttc--tttcttagatgct-gatatttt--cttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
|||    ||  |  | | |||            ||| |    |     | |||  |||| | || | |  |||||||  |  | |  ||| |  ||||| ||||| ||| ||||||||||||||||||||||||| |||||||||||||
gtattccttgtctctctcattccgacacagtggaaattctataccttttttcattgtagttggagtgcagtttcttacttatttggcattatgtcttttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGTAATG

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
gtagaatttccat--ttttattttattttttaaa---aaacttccaa------tgacatctcagta-gcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
|| | ||| | ||  ||||| | | |    ||||   ||| ||   |      |  | ||  ||   || |  ||||||  ||| ||| |    | |  |||| ||||||||| ||||||| |||||||||||||||||||||||||| ||||
gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G14360.1 (Glycine max), 3'ss of exon 5
gtagaatttccat--ttttattttattttttaaa---aaacttccaa---tgacatctcagtagcttg--atttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
|| | ||| | ||  || || | | |    ||||   ||| ||   |   |    |||    ||| ||   ||||||  ||  ||| |   || |  |||| ||||||||| ||||||| |||||||||||||||||||||||||| ||||
gttgtattcctatacttctagtctctcacataaagtgaaattttataccttattttcttcccagcctgcattttcttatttgtatggtatcatgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G07120.1 (Glycine max), 3'ss of exon 3
gtagaatttccatttttattttattttttaaa----aaacttccaatgacatctcagt----agcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
|| | ||| |  || |   ||        | |    ||| |    |     | ||  |    || |   |||||| ||||  ||    ||| | ||||| ||||| ||| ||||||||||||||||||||||||| |||||||| ||||
gtcgtattcctgttctctcttatccacacacagtggaaattctataccttttttccttgtagagttcagtttcttacttatttggcattatgt-cttttttcagGCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATG

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|45368123|gb|CK906482.1|CK906482
EST:     GCAACCATAGCCCGTATAG                         GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTGATG
genomic: GCAACCATAGCCCGTATAGgtagaatttc ... cttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgacatctcagtagcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG
                                 tgctgat  putative branch site (score: 3)
                                       tattttcttttctc  CT-rich tract
                                    tgatattttctttt  TA-rich tract