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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttttatttttttgggccataacatttttctcattggtgttgttgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC

Basic information

species Vitis vinifera
transcript Vv19s0176g00140.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g11120.1 (Oryza sativa), 3'ss of exon 4
gtaagtttttttatttttttgggccataacatttttctcattggtgttgttgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC
               |  |   |    | | | |     | ||   |     | ||||  |||||    ||||| || | ||      ||  | | |   || ||| || || ||| | ||| | ||||||||||| |||||||| |||| ||| || ||||| ||||||||||||||||| |||||  | ||||||||||| | 
--------------gtaatatagtttcaccttctactgaagtgccttctcccatagtgaatctat----tttttgatgt-atgtaagttttatttgttctaa-agAGGGCGCAAGAACTGCACTTAACCTTGGTGGCACAATGCTTGGTTTCTACCCTGTTAGAGTCTTACCTTCAAAGACAGCTATATTGCCTGTGAATCCAAA

upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G40060.1 (Glycine max), 3'ss of exon 4
gtaagtttt--tttatttttttgggccataacatttttctcattggtgttgttgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC
|||||| ||    |     |      ||   ||  || ||| ||           |  | | | | |      | ||||   ||  ||| |   | | |||  ||||||||||| ||  | ||  |||| |||||||| ||  |||| || ||||||||||| |||||  | |||||||| ||||| || ||||| |||||||||||
gtaagtcttgtcctgaaaatcctactcacttcaaatt-ctccttaacaca--cagacttatttttttaaccaatatcatgcaattttca-tgaatttgtgtttacagATGGTGCAAGGACCGCTCTAAATCTTGGTGGTACTGTGCTTGGATACTATCCAGTCAGGGTTCTTCCTTCAAAAACTGCCATTCTTCCAGTGAATCCTAC

upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G53650.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtttttttatttttttgggccataac--atttttctcattggtgttgttgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC
|||||||     |   | ||||    ||    || ||  | |         || ||   ||||| |  |    || ||| |  ||   | ||| | |     |||||| |||||  || | || ||||  |||||||| |||||| | || || || |||||||| |||||||||||||| |||||||| ||||| |||||||| ||
gtaagtta----aagctattggattttacttaatcttctttacaaacaaaattcaa---gtgtcaagtttgagttacat-tagtatgaatttgttttgaaa-aacagAAGGTGCACGATCGGCTTTAAGTCTTGGTGGAACAATGATCGGATATTACCCAGTTAGAGTCTTACCTTCAAAAACTGCTATTCTTCCAGTGAATCCCAC

upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G14450.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagttttttt------atttttttgggccataacatttttctcattggtgttgttgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC
||||||||   |      || |||    ||  |||||    | |   ||    | ||  ||      ||||   ||  |    ||   ||  | |  || | | || ||||| || ||    | ||| |||| ||||||||| |||||||| || | ||| || || ||||||||||| ||||| ||||| ||||| || |||||||| ||
gtaagtttggctgctggaatctttaaatgctttaacaaaaatgtgcatgtcacttttttaacc---cctatagtatactattcatt-cacatagtaagtttgtttctacagAGGGCGCACATGAAGCTTTAAGCCTTGGTGGAACAATGCTCGGGTTCTACCCGGTGAGGGTCTTACCCTCAAAAACTGCCATCCTACCAGTGAATCCCAC

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|110379205|gb|EC944385.1|EC944385
EST:     TGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC                         ATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATC
genomic: TGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGCgtaagttttt ... atgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATC
EST: gi|33404787|gb|CF210414.1|CF210414
EST:     TGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC                         ATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATC
genomic: TGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGCgtaagttttt ... atgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaagtgtgtctatgtgatttttcatatcatactcacttggtatatgtcaacagATGGTGCGAGAGCAGCATTAAACCTTGGTGGGACAATGCTAGGTTACTATCCAGTTAGGGTCTTACCTTCAAAGACTGCTATCCTTCCTGTGAATCCTAC
                               tactcac  putative branch site (score: 1)
                  atttttcatatcata  TA-rich tract