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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatcgtttttcccagttcttgtattttttttttttttttgaatttgtaaggctgaaatttatcctgaatttttggttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGTCCAATTTGCCTCGCCCGGATCTCAAACAG

Basic information

species Vitis vinifera
transcript Vv19s0090g01130.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 1
-------------gttatcgtttttcccagttcttgtattttttttttttttttgaatttgtaaggctgaaatttatcctgaatttttggttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGTCCAATTTGCCTCGCCCGGATCTCAAACAG
                 || | ||||   | | || | |||     | |||||||   || | |   |  | || | | || | |||  |||||   |||||  ||||||||||||||| || | ||| ||||  ||||| ||||| |||||||||||||| |||   ||||| || |||
gtacagcacagcacagttcatctttcaatgattttttttttaaaaatattttttggtcttctgaaaat--atttcaccgtgcactttgtgtttt---cagATAGCGATGGCCGCATTACGGGGAGTGATGCCACCAAGTTTTTCGCCATGTCCAATTTGCCCCGCGAAGATCTTAAGCAG

upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 1
---------------gttatcgtttttcccagttcttgtatttttt-ttttttttttgaatttgtaaggctgaaatttatcctgaatttt-tggttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGTCCAATTTGCCTCGCCCGGATCTCAAACAG
                 | | ||| |     ||||||   | ||   || |  | || | | | |  |    ||  |||| ||   |||  ||    ||| ||||   ||||||||| |||||||| || || || || ||||||||| ||||||| ||||||||||| |||||  | || |||
gtctcgtttcatgttcattttgttgtcttgtgttcttcagtcttcgattctcgtcttcactatatgcgctaaaagcttattctctgtttggtgtaaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAGTTCTTCACTATGTCGAATTTGCCTCGTCCGGAATTGAAGCAG
















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|71855919|gb|DT004974.1|DT004974
EST:     TAAACAGAACCAGATGATCTATCAGGAGTGGTTCAATTTCGCTGATTCAG                         ATTCCGATGGCCGCATTACTGGAAATGACGCCACAAAGTTCTTCGCTATGT
genomic: TAAACAGAACCAGATGATCTATCAGGAGTGGTTCAATTTCGCTGATTCAGgttatcgttt ... ttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGT
EST: gi|161706682|gb|FC056343.1|FC056343
EST:     TAAACAGAACCAGATGATCTATCAGGAGTGGTTCAATTTCGCTGATTCAG                         ATTCCGATGGCCGCATTACTGGAAATGACGCCACAAAGTTCTTCGCTATGT
genomic: TAAACAGAACCAGATGATCTATCAGGAGTGGTTCAATTTCGCTGATTCAGgttatcgttt ... ttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttgaatttgtaaggctgaaatttatcctgaatttttggttttgatcagATTCCGATGGCCGCATTACTGGAAATGACGCCATAAAGTTCTTCGCTATGTCCAATTTGCCTCGCCCGGATCTCAAACAG
     ttttgaatttgtaa  TA-rich tract