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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttctttctctgtttctacgaatgcatcttctggaaactcatttgctcttgattctccttcggattaggtttttctgcgtttgataagtggatcgggttttttgtgtgattgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGGAGGCGTTTCCTTTGTACAACAAATCTCACATGATTTGCCTCGAAATGCC

Basic information

species Vitis vinifera
transcript Vv14s0060g02220.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------gtgttctttctctgtttctacgaatgcatcttctg--gaaactcatttgctcttgattctcc-ttcggattaggtttt--tctgcgtttgataagtggatcgggttttttgtgt--------------------gattgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGGAGGCGTTTCCTTTGTACAACAAATCTCACATGATTTGCCTCGAAATGCC
                        |  || |   | |||  |  |||  ||       || |           | |||||||| |  | |||  |||||  | || |  | ||  |||  | |   | ||||| |                    || |  |  |||||||     |||| |||||||| ||||| ||||| ||||| || |||  ||| || |||||  ||||||||||| |||||||||||||||| ||||||||
gtacttagatgcatcgtacatacatatttccgacgattcctccgatgtgtccctcaatgagaaggcgagatcatagattctccgtgtgcattttgttttgttttgagcatcatgcgtgatttgacatctttgtttcgatttctgtaaatcttttggacttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGGAAGCATTTCCAGTGTACAACAAAACTCACATGATTTGCCTTGAAATGCC
















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|30303590|gb|CB980384.1|CB980384
EST:     GTGGTTCCTCCTCAACTCTCCCGCCGGAGAAATTCAATACGTCGCCAAAG                         ATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGG
genomic: GTGGTTCCTCCTCAACTCTCCCGCCGGAGAAATTCAATACGTCGCCAAAGgtgttctttc ... ttgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGG
EST: gi|110713063|gb|EE088666.1|EE088666
EST:     GTGGTTCCTCCTCAACTCTCCCGCCGGAGAAATTCAATACGTCGCCAAAG                         ATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGG
genomic: GTGGTTCCTCCTCAACTCTCCCGCCGGAGAAATTCAATACGTCGCCAAAGgtgttctttc ... ttgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggtttttctgcgtttgataagtggatcgggttttttgtgtgattgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGGAGGCGTTTCCTTTGTACAACAAATCTCACATGATTTGCCTCGAAATGCC
              gtttgat  putative branch site (score: 5)
               tttgataa  TA-rich tract