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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttccttgctctacaatgatgcttttccttttctacaagctttctgtttcatcttcctctgtttttgctttgggttttttccgctgttcgttaatgtttctttttctttctattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG

Basic information

species Vitis vinifera
transcript Vv01s0127g00010.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G39100.1 (Glycine max), 3'ss of exon 1
gtactttccttgctctacaatgatgcttttcctttt-ctacaagctttctgtttcatcttcctctgtttttgctttgggttttttccgctgttcgttaatgtttctttttctttctattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
            |  |  | |   |    ||||| | | ||  |  | |   ||  ||||  | | |  ||  | |   |  ||      ||    | |||| | ||| | ||| | |     ||||||||||||| ||| | || || |||||| | |||||| ||||||  |||||||||||||| | | |||||||||| |||||||||
------------ccttcaagtagcgaggatccttctgccaccggtgtaca--ttagtcttattatataattaatatatatgctt------gtgttgtgatgtgtgtttatttttttgt-----agAGTCCTGATGGAGATATAATAGACTGTGTTGTGTCTCATATGCAACATGCTTTTGATCATCCTCTACTAAAAGGACAAAAACCATTG

upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G03390.1 (Glycine max), 3'ss of exon 1
gtactttccttgctctacaatgatgcttttccttttctacaagctttctg--tttcatcttcctctgtttttgctttgggttttttccgctgttcgttaatgtttctttttctttctattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
                                  | |  |||  |||||   |||   ||||| |||||||  |    | |||   ||       | | | |||| ||||| | |   ||||  ||||||||||||||||| | || || |||||  | ||||||| ||||||||||||||||||||||   || || ||||| |||||| ||
---------------------------------gtgcgccaaagtttctagcttttcacttcccctgttttctcacctgttttgaaccataacatggtgaagtttttttttttgttccttgc--agAGTCCTGATGGTGATGTAATAGACTGTGTGGTGTCTCATCAGCAACCAGCTTTTGATCATCCAATGTTGAAGGGACACAAACCACTG

upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G04240.1 (Glycine max), 3'ss of exon 4
gtactttccttgctctacaatgatgcttttccttttctacaagctttctgtttcatc--ttcctctgtttttgctttgggttttttccgctgttcgttaatgtttctttttctttctattgctt--agAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
                                 | |  | ||| ||   | ||  ||   ||| |||||||  |    | |||   ||       | | | |||| ||  | ||| |  | |||  ||||||||||||||||| | || || |||||  ||||||||| ||||||||||||||| |||||    || || ||||| |||||| ||
--------------------------------gtgtgcaaaagtttctagctttttcacatcccctgttttctcccctgttttgaaccataacatggtgaagttttttccttttttttctccttgcagAGTCCTGATGGTGATGTAATAGACTGTGTGGTATCTCATCAGCAACCAGCTTTTGACCATCCCATGTTGAAGGGACACAAACCACTG

upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G20700.1 (Glycine max), 3'ss of exon 1
gtactttccttgctctacaatgatgcttttccttttctacaagctttctgtttcatcttcctctgtttttgctttgggttt--tttccgctgttcgttaatgtttctttttctttctattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
                         |||  | |  |    |  ||||  ||| |    | |  |  |||   | |    ||  |    | | | | |  ||  |  | | | ||||| ||    ||||| || |||||||| | || || ||||||   |||||| ||||||  |||||||||||||| ||| | |||||||| |||||||||
-------------------------cttcacgtagtgaggatccttttggttccggtgtacattagtttcattatataattgataattgatatgcatgtattgtgttgtgtgtttctcttttgcaGAGTTCTTATGGTGATATAATAGACTGTGTTGCGTCTCATATGCAACATGCTTTTGATCATCCTCAACTGAAAGGACAAAAACCATTG

upper sequence: Vv01s0127g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G70550.2 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------------------------------gtactttccttgctctacaatgatgcttttccttttctacaagctttctgtt---tcatcttcctctgtttttgctttgggttttttccgctgttcgttaatgtttctttttctt-tctattgctt--agAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
                                                                       |||| |  ||   ||    |  |||| |   ||| ||      | |   ||   | |  | |   | || || || ||   ||  || | | || | |  |||||||||| | | | |  || ||  ||||  | ||||| |||   || |||||||||  | |||||| |||||||||||| |||||||| |  ||| ||||||| |||||||||
gcaatttctctattctcaaatatctcaatttgataaatgtatatatatacagacatctttgtttactttgttactctgtttcgactctgtttttgctctgtttttactctgttttgttaattaactgacatgcaagttttgttactctgttcttactctgttttttgctc-tgtttcttttccatgtgttatgtttgcagAGCTCAGATGGAGATAAAATAGATTGTGTTTCAACTCATCAGCAACCAGCTTTCGATCATCCTCTCTTACAAGGACAAAAACCATTG

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|56408725|gb|CX016977.1|CX016977
EST:     TAAGAGACCATCTCCTGAAGATCAATAAGCCTGCCGTCAAGACAATTCAG                         AGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCT
genomic: TAAGAGACCATCTCCTGAAGATCAATAAGCCTGCCGTCAAGACAATTCAGgtactttcct ... tattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttgggttttttccgctgttcgttaatgtttctttttctttctattgcttagAGTCCTGATGGTGATCTGATTGATTGTGTTCTATCTCATCTGCAACCAGCTTTTGATCATCCACAATTAAAAGGACAGAAACCATTG
                       cgttaat  putative branch site (score: 4)
                             tgtttctttttctttc  CT-rich tract
                         ttaatgtttcttttt  TA-rich tract