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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgtttttcttgatatatttttgttattcaacttctatactttgctataggtcctaactgcaagaatatcaactgttaattgcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG

Basic information

species Vitis vinifera
transcript Vv08s0040g01460.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G05420.1 (Glycine max), 3'ss of exon 3
gcatgtttttcttgatatatttttgttattcaacttctatactttgctatag-gtcctaactgcaagaatatcaactgttaattgcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG
| |  ||| ||||    | || ||    |||    | | |   ||    ||   |  | | |||      |   | | || | || ||||||||||||| || ||||  ||||| |||||||||||||||||||||
gtacatttatcttt-cgtgttgttacatttctgtgtttgtttcttatggtatcataatgattgctgatcgaaatattcttgaatgtagAATTTTGAGAAAATCACTTCCCGTGTACAAAGTAAAAACAAGGATCAG

upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G23840.2 (Glycine max), 3'ss of exon 2
gcatgtttttcttgatatatttttgttattcaacttctatactttgctatag-gtcctaactgcaagaatatcaactgttaattgcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG
| |  ||| ||||    | || ||    |||    | | |   ||    ||   |  | | | |      |   | | || | || ||||||||||||| || ||||  ||||| |||||||||||||||||||||
gtacatttatctttg-gtgttgttacctttctgtgtttgtttcttatggtatcataatgatttctgatcgaaatattcttgaatgtagAATTTTGAGAAAATCACTTCCCGTGTACAAAGTAAAAACAAGGATCAG

upper sequence: Vv08s0040g01460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G36960.3 (Arabidopsis thaliana), 3'ss of exon 3
gcatgtttttcttgatatatttttgttattcaacttctatactttgctataggtcctaactgcaagaatatcaact----gttaatt-gcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG
               |||    |||   |||  ||||| ||  ||| || |  |  ||  ||   |||  |   ||    |||  || | |||||||||||||||| |||| |||||| || || ||||||||||| |||
--------------gtatcaccttgacgttcttcttctctatgttgtta-acctgttatgtgtgtgaaccttctctttgtgttgttttgtagAATTTTGAGAAGATAACTTCTCGTGTTCAGAGCAAAAACAAGGACCAG

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|28963174|gb|CB342207.1|CB342207
EST:     GAGGAGG-AAGTTTCTTCACTGCATTGCGACAAGTTGGCAAG                         AATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG
genomic: GAGGAGGAAAGTTTCTTCACTGCATTGCGACAAGTTGGCAAGgcatgttttt ... ttaattgcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttctatactttgctataggtcctaactgcaagaatatcaactgttaattgcagAATTTTGAGAAGATTACTTGTCGTGTCCAAAGTAAAAACAAGGATCAG
     tatacttt  TA-rich tract