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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttctaacatttctgtaattttattgtctgatgttaactttttttttttccctccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG

Basic information

species Vitis vinifera
transcript Vv18s0072g00310.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G30820.1 (Glycine max), 3'ss of exon 8
gtaggtttctaac-atttctgtaattttattgtctgatgttaactttttttttttccctccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaat-gcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
||| ||| | |   ||||  | || || |||||    | ||  ||| |   |||          |||| |    || ||| |  |     |||   |       ||| ||     | |   |   |     |||||  |      |||| |||  |||  | | |   |||||||    |||   |  ||   || | ||||||||||||| ||||||||||||||||||||||| || || ||
gtatgttacaatttatttaagcaaattcattgt---gtattggcttgtgggttt----------atagaa----cttatgctgagccc--acttgtcccccccccaaacaaaaaaaaactgtctttt----cattttctatttgtttttattttttac--tttaacttattgtatggacatttaattcatcttaatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAG

upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G36770.1 (Glycine max), 3'ss of exon 7
gtaggtttctaac-atttctgtaattttattgtctgatgttaactttttttttttccctccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
||| |||   |   ||||  | ||||| |||||    | ||  ||| |   |||          ||||   |    |         |||||  | ||     |  ||  |  ||  | |      | |||   ||| ||    |||||||| |  ||             || | ||||| |  |  | ||     | |||||||||||| ||||||||||||||||||||||| || || ||
gtatgttaaaatttatttaagcaatttcattgt---gtattggcttgtgggttt----------atagagcttatgctgaacccacttgtatccccccaacaaaaaaaaaactgtcttttcattttctaattgttttttatttacttttttcttata-------------tggacatttaat--tcatcttaatttttcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAG

upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G08870.2 (Glycine max), 3'ss of exon 2
gtaggtttctaacatttctgtaattttattgtctgatgttaactttttttttttccc-tccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
                   |||  || | | | |      || ||  |  |||   | |   ||     || | || |||||||| || ||   | ||  ||| ||| | |||       ||  || |       ||||| ||| || ||| |       |||  | | ||| | ||| |||| | || |    | ||||||||||||||  |||||||||||||||||||||| || || ||
-------------------gtaggttaaatttatctcagaaatttcatcctttagtcgtttctgggtttagagacttatgttatgcttcta---tgcagttgatcaatcttgtatcccccatctatctg------tctttgccatttatttatt------tatttttggttggacattaattcat-gttt----attgcagCCTTGATGAACTACAAGTGAACTACAATAATGACCGTTCAAG

upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G27970.1 (Glycine max), 3'ss of exon 6
gtaggtttctaacatttctgtaattttattgtctgatgttaactttttttttttccctccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
                            | |  | |  ||| || |  | |||  | ||||  || ||  | |    |   |   || |  | | | |||  ||     ||| ||||       |||   ||| | | |  |  |   ||||    | || |   |  ||| | ||| |||| | || |    | ||||||||||||||  |||||||||||||||||||||| || || ||
---------------------------gtaggttaaatttatctctgatattt--catcctctattggtttctgggttaagagacttatgttattcttgtatgc-----tgttgataaatcttttatccccatctatctgtctttgccttttat--ctatttatcg--ttggacattaattcat-gttt----attgcagCCTTGATGAACTACAAGTGAACTACAATAATGATCGTTCAAG

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|110387338|gb|EC951996.1|EC951996
EST:     GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA                         CCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
genomic: GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAAgtaggtttct ... ggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
EST: gi|351014018|gb|FQ434170.1|FQ434170
EST:     GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA                         CCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
genomic: GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAAgtaggtttct ... ggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttcctacaatatgatggattgtatatttattctttgtattggaaatgcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
                      attgtatatttattct  TA-rich tract