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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattccctctatatttcttatatatgatggattttacaatgaattatatcgtttgaaacatagataattgataggaaaagtagtagtaacatcttaggattaatggttttatgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAGAAGTACATGACCAAAGCTTTTCATAACATTAAGGCAATGTGTCAATCGC

Basic information

species Vitis vinifera
transcript Vv16s0039g02750.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g02750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g43470.1 (Oryza sativa), 3'ss of exon 8
gtaattccctctatatttcttatatatgatggattttacaatgaattatatcgtttgaaacatagataattgataggaaaagtagtagtaacatcttaggattaatggttttatgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAGAAGTACATGACCAAAGCTTTTCATAACATTAAGGCAATGTGTCAATCGC
                                 |  || ||   |  || | ||        | |||  ||   | |||   || | | |  || || |   ||       |||| || ||||| ||||| || || |||||||| |||||||||||||| |  ||||| || ||||||||||  || |||||||| ||||| ||||  |||||  |||| |
--------------------------------gtaatagaacagaagattttgtgccttctttggatctttcccatgaatc-taatggca-tatgtttgtgctacg---cctatggtg-cagAACATTCAGGGCTTCATGTGGGATGAAGAGAAGGTGAACAGGGAGCTCCAAAAGTACATGAAGAACGCTTTTCAGAACATCAAGGACATGTGCAAATCCC

upper sequence: Vv16s0039g02750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 3'ss of exon 8
gtaattccctctatatttcttatatatgatggattttacaatgaattatatcgtttgaaacatagataattgataggaaaagtagtagtaacatcttaggattaatggttttatgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAGAAGTACATGACCAAAGCTTTTCATAACATTAAGGCAATGTGTCAATCGC
                 |  |  | |||  || |  ||| ||   || | |||  | |    | ||| | |                  | |||||      |     ||  | | | |||||| |||||||| || |||||||| || ||||||||||| |  ||||| || |||||||||| |||  |||| ||  |||| ||||| |||||| |||| |
----------------gtaattgaaatgccggttcctacgatc--ttgtttcgcattagctttggatgaata----------------cagcatctcccttatgcgctttgaacggttgcagAACATTCAAGGGTTCATGTGGGATGAGGAGAAGGTGAACATGGAGCTCCACAAGTACATGAACAATTCTTTCCAGCACATCAAGGCCATGTGTAAATCTC
















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|110383828|gb|EC948229.1|EC948229
EST:     TCTATGCTAATGCTGGAGGTGTGACCGTGAGCTATTTTGAGTGGGTTCAG                         AATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
genomic: TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAGgtaattccct ... atgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
EST: gi|30133193|gb|CB918532.1|CB918532
EST:     TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAG                         AATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
genomic: TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAGgtaattccct ... atgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
EST: gi|37190544|gb|CF609893.1|CF609893
EST:     TCTATGCTAATGCTGGAGGTGTGACCGTGAGCTATTTTGAGTGGGTTCAG                         AATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
genomic: TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAGgtaattccct ... atgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
EST: gi|30251187|gb|CB968920.1|CB968920
EST:     TTTATGCTAATGCTGGAGGTGTGACCGTGAGCTATTTTGAGTGGGTTCAG                         AATATTCAAGGTTTTATGTGGG
genomic: TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAGgtaattccct ... atgttggcagAATATTCAAGGTTTTATGTGGG
EST: gi|156737272|gb|EV241386.1|EV241386
EST:     TCTATGCTAATGCTGGAGGTGTGACCGTGAGCTATTTTGAGTGGGTTCAG                         AATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG
genomic: TCTATGCTAATGCTGGAGGTGTGACTGTGAGCTATTTTGAGTGGGTTCAGgtaattccct ... atgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgataggaaaagtagtagtaacatcttaggattaatggttttatgttggcagAATATTCAAGGTTTTATGTGGGAAGAAGAGAAGGTGAATAATGAGCTTCAGAAGTACATGACCAAAGCTTTTCATAACATTAAGGCAATGTGTCAATCGC
                                 attaatggttttat  TA-rich tract