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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTCACATATCGTGAGGTCATTGCCATTTTGATGCAACGTCATGTTTTGGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacactccaaccaatatacagccaattattctttgcatatttctttttgagagccttttttcacacaatctttgtaactttgcaatgagaaatat...

Basic information

species Vitis vinifera
transcript Vv06s0004g07150.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g07150.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA01G31270.1 (Glycine max), 5'ss of exon 3
GCTCTCACATATCGTGAGGTCATTGCCATTTTGATGCAACGTCATGTTTTGGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacactccaa-------ccaatatacagc-caattattctttgcatatttctttttgagagccttttttcacacaatc---tttgtaactttgcaatgagaaatat----------------------------
||||| |||||| | || || |||||||| |||||||| || |||||| | |||||||| ||||| ||||| || |||||||| || | || |||||||||||| ||| | || ||| || | |||| |||| || || || || | | || |||||| || | ||| | |
GCTCTAACATATAGAGAAGTTATTGCCATCTTGATGCAGCGCCATGTTCTTGTTGATGGCAAGGTTAGGACAGACAAGACATACCCTGCTGGTTTCATGGgtatgtacattttaaaacttggttgccatatagtgctgttatgtccaaattattgtttatttggatatttggactatattgtcacttttgtatattcatatcaagatttttaaattgggattttgacaattttgaccag

upper sequence: Vv06s0004g07150.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA03G06440.1 (Glycine max), 5'ss of exon 3
GCTCTCACATATCGTGAGGTCATTGCCATTTTGATGCAACGTCATGTTTTGGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacactcc--aac-------caatatacagccaattattctttgcatatttctttttgagagccttttttcacacaat------ctttgtaactttgcaatgagaaatat----------------------------
||||| |||||| | || || |||||||| |||||||| || |||||| | |||||||| ||||| ||||| || |||||||| || | || |||||||||||| ||| | ||| | ||||| | || || | || ||| | || | | | | | ||| || |||| | || ||| | |
GCTCTAACATATAGAGAAGTTATTGCCATCTTGATGCAGCGCCATGTTCTTGTTGATGGCAAGGTTAGGACAGACAAGACATACCCTGCTGGTTTCATGGgtatgtacatttttaaacttggttgccatatagtgttgcttgttatgaccaaattattgttcgtttggatatctggacaatattgtcacttttgcatattcatgtcaagattttttaattgagttttggacaattttgaccag
















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|110702679|gb|EE078871.1|EE078871
EST:     GGTTGATGGGAAGGTCAAGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|30296893|gb|CB973687.1|CB973687
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|110701173|gb|EE078481.1|EE078481
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|161709159|gb|FC061369.1|FC061369
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|33406463|gb|CF212090.1|CF212090
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|110688373|gb|EE066853.1|EE066853
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
EST: gi|110700067|gb|EE077679.1|EE077679
EST:     GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGG                         ATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA
genomic: GGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacac ... ctcattccagATGTTGTGTCAATTCCTAAAACAAATGAGAACTTCCGTCTGCTTTACGACA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTCACATATCGTGAGGTCATTGCCATTTTGATGCAACGTCATGTTTTGGTTGATGGGAAGGTCAGGACCGATAAGACATATCCCTCAGGCTTCATGGgtatgcacactccaaccaatatacagccaattattctttgcatatttctttttgagagccttttttcacacaatctttgtaactttgcaatgagaaatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaccaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgagaaa