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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacctaaaagagaatttttttatttttattttttatcatttggtcattttcatgaaccattgcttttgtgggtgtaactctttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC

Basic information

species Vitis vinifera
transcript Vv17s0000g03290.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g33040.1 (Oryza sativa), 3'ss of exon 8
gtaaacctaaaagagaatttttttatttttattttttatcatttggtcattttcatgaaccattgcttttgtgggtgtaactctttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC
         ||  | ||  |  | |||||    |  | | |  || |  ||||        ||  |  |  |  ||||  || |||||        ||||| ||||| ||||| |||||||||||| ||||  |||| |||||||||| ||| ||||| || |  |||||||| || || || |  |||||  ||||||
-------gtaagcataacgtcctcattttgcaatggtgt-acatgctgtttttt-----taatctcaataatatgtgttgctttttca--------cagAATTTTGTTGATCTTGCTGGAAGTGAACGAGCTGCACAAACACATGCAGTTGGCGCAAGACTGAAAGAAGGCTGCCATATAAATCGCAGCTTACTGACTC

upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G31270.1 (Glycine max), 3'ss of exon 7
gtaaacctaaaagagaatttttttatttttattttttatcatttggtcattttc--atgaaccatt--gcttttgtgggtgtaactctttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC
                         |  ||  | |||  || |||   | |||   ||| |  | |  | | |||| |    ||||| |      |  ||||||||||||| ||||| ||||||||||| || ||  |||| ||||||||||||||  | ||||| |  |||||||| || ||||||||||||||||||||||
------------------------gtaattgatgtttcccacttgtctacttttgaatggataaattagttcttgttga-acaactcatgtctattattgcagAACTTTGTTGATCTTGCTGGAAGTGAGAGGGCTGCACAAACACATGCAGATGGCACTAGGCTGAAAGAAGGCTGCCATATTAACCTTAGCTTGATGACTC

upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G10790.1 (Glycine max), 3'ss of exon 7
gtaaacctaaaagagaatttttttatttttattttttatcatttggtcattttc--atgaacc-attgcttttgtgggtgtaactc-tttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC
                         |  || || |||  || ||    | |||   ||| ||  |||  || |    |  |||||| | ||  ||   ||||||||||||| ||||||||||||||||| || ||  ||||||||||||| |||||  | ||||| |  ||||| || || ||||||||||||||||||||||
------------------------gtaattgttgtttcccacttatctacttttgaatggacagattagttcttgttgaataactcatgtctgtgat-tgcagAACTTTGTTGATCTAGCTGGAAGTGAGAGGGCTGCACAGACACATGCGGATGGCACTAGGCTGAAAGAAGGTTGCCATATTAACCTTAGCTTGATGACTC

upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S255_53V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------------------------------gtaaacctaaaagagaatttttttattt----------ttattttttatcatttg-gtcattttcatgaaccattgcttttgtgggtgtaactctttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC
                                                                                          | ||   ||  |  |  ||||||||||          | | || |  | ||||   || |     |||| |||    || |    |  | || |||   | |  | ||||| ||||| ||||| ||||||||||| ||||| || || || ||||| |||||  | |||||||||||||||   ||||||||||  ||| || | ||||
gtaattgacttatccatcatctgttccagaatccttcaaaatcagttgtcaagtgcgccagttcaggacattgtgagagactgctgtaattgaaggaaatggccaccttttttatttaaggacatcatcacttctattgatttatatcctacaggtgaatcatctaattcgccactcgatcttttt---ttttattcagAATTTTGTGGATCTGGCTGGAAGTGAGAGAGCTTCTCAAACTCATGCTGATGGAACCAGGCTCAGGGAAGGCGCCCACATTAACCGCAGCCTGTTAACTC

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|110687709|gb|EE065429.1|EE065429
EST:     GTACTCTCCGAGAAAATTCAGGTTGCGTCAAGTCTTTTGTTGCTAGCCTG                         AACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGAT
genomic: GTACTCTCCGAGAAAATTCAGGTTGCGTCAAGTCTTTTGTTGCTAGCCTGgtaaacctaa ... tgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcattttcatgaaccattgcttttgtgggtgtaactctttcaatgtcctgcagAACTTTGTAGATCTAGCTGGAAGTGAAAGAGCCTCACAGACACATGCAGATGGTGCAAGGCTCAGGGAAGGCTGTCACATTAACCTTAGCTTGATGACTC
                              gtgtaac  putative branch site (score: 3)
     ttttcat  TA-rich tract