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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtttgatttttggttttatggtgttggctaattgggttttgggttttttggtgggtttttgagttgggtgtttcatgtttgtgggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC

Basic information

species Vitis vinifera
transcript Vv16s0098g00760.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0098g00760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G40450.1 (Glycine max), 3'ss of exon 1
-------gtatgtgtttgatttttggttttatggtgttggctaattgggttttgggttttttggtgg--gtttttgagttgggtgtttcatgtttgtgggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC
        ||| |||| | |  ||| | ||   || ||   || ||    |||   ||||    | |   |||||   ||||| |      | |||||  ||| | || |||||||| | |   ||| || |||  ||||||||||||||||||||| | ||| || |||||||||||||||||  |||||||||||||||||     
tacttaaatatatgttag-tgattgttgttggagt-ttctttagtttatcttttttttttcaaatagttattttttttttgggggg-----ggttgtgtattt-gtagGTTTGTCGGTGGTACAGACTAAGGATCCGGAGTGGTTCTTCTTCTGTCCACAGGACCGAAAGTATCCAAATGGGCATCGATTGAACAGAGCGACGAATAA

upper sequence: Vv16s0098g00760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G14290.1 (Glycine max), 3'ss of exon 1
gtatgtgtttgatttttggttt-tatggtgttggctaattgggttttgggttttttggtgggtttttgagttgggtgtttcatgtttgtgggt------tttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC
 || | || ||  ||   |||  | | ||| | | |  | | ||||     | |    |  |||||||  |   ||  || || ||  |||||      |||| || |||||||| | |   ||| || |||  ||| |||||||| |||||||| | ||| ||||||||||||||||||||  ||||||||||||||||      
-ta-gagtctgtcttagagttcatttagtgattgttgttggagtttc----tctcgtttatgtttttgtttaaagtaatttattttgttgggttgtgtatttgtagGTTTGTCGGTGGTACAGACCAAGGATCCGGAATGGTTCTTTTTCTGTCCACAGGACCGGAAGTATCCAAATGGGCATCGATTGAACAGAGCGACAAATAA

upper sequence: Vv16s0098g00760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G36840.1 (Glycine max), 3'ss of exon 1
-gtatgtgtttgatttttggttttatggtgttggctaattgggttttgggttttttggtgggtttttgagttgggtgtttcatgtttgtgggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC-
  | |||| |  |   |       | ||||         |  | ||||  ||||||  |   ||  |  | | | ||  |   |  ||||  | ||| ||||||||| | | |  |||  || |||   |||||||||||||||||||| | ||| |||||||||||||| |||||||| |||||| |||| |||  | | 
aatttgtggtaaacaatgatgcggaaggtggctatgctgtttgatttgctttttttttttttttaatttgcttgttgggtttggggtgtgcttgttgtagATTTGTCAGTGGTACGGAACAAGGATCCAGAGTGGTTCTTCTTCTGTCCGCAGGACCGGAAGTATCCAAACGGGCACAGGTTGAACCGAGCTACGA-ATCA

upper sequence: Vv16s0098g00760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G38710.1 (Glycine max), 3'ss of exon 1
-gtatgtgtttgatttttggttttatggt---gttggctaattgggttttgggttttt---tggtgggtttttgagttgggtgtttcatgtttgtgggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC
   ||   | ||     ||| | |   ||    || ||| |||   ||||   |||||   || |||||||    | |||| |||    ||||||  |||  | ||||||||| | | |  |||  || |||   |||||||||||||||||||| | ||| ||||||||||| || |||||||| |||||| |||| |||     
aacattgatgtggaaggtggctatgctgtttgatttgcttatttttttttatatttttccttgttgggttt----ggtgggggttgggggtttgtttgtt--gtagATTTGTCAGTGGTACGGAACAAGGATCCAGAGTGGTTCTTCTTCTGTCCGCAGGACCGGAAGTATCCGAACGGGCACAGGTTGAACCGAGCTACGAGTCA

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|161706924|gb|FC056805.1|FC056805
EST:     AGTCATTCGGGAGATCGATGTATGCAAATGGGAGCCCTGGGATTTGCCTG                         ATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCC
genomic: AGTCATTCGGGAGATCGATGTATGCAAATGGGAGCCCTGGGATTTGCCTGgtatgtgttt ... ggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggttttttggtgggtttttgagttgggtgtttcatgtttgtgggttttgcagATTTGTCGGAGATCAGGACGAACGATATGGAGTGGTTCTTCTTCTGTCCCCGGGATCGGAAGTATCCAAATGGGCACAGATTGAACAGAGCGACGGCAGC
     tttttt  TA-rich tract