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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgcaactagttgcctctgatatttgaaatctcaatcctttttgtcatttcatggttgtagtgtgcttgtcactcatttaattattggagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT

Basic information

species Vitis vinifera
transcript Vv12s0034g02160.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0034g02160.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G408305_T03 (Zea mays), 3'ss of exon 11
-------------------------------------------------gtgagttgcaactagttgcctctgatatt--tgaaatctcaatcctttttgtcatttcatggttgtagtgtgcttgtcactc--atttaattattggag--agtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT
                                                  ||     || ||| | |    | |  |   | |||  || ||  |||||   |   |||||||||  |||| ||  |  |   |  || ||  ||||   | ||||||||||  | | ||| || ||||||| ||| ||||| ||||||  | | || |||||||||||||| ||||||||||||||  | |  || ||||||
gtatgttaccctcttaccctatctctttgcacatattccatagtcctgtttgctcgacacctattggttaattaattcaataaaagttctatatttttta--aacacatggttgtcttgtgttttgcttttgaaactacttcctggaataaatgcagAAATCTCCCCATCCTCCCCAAGATAAGACTATGGTTGTTGCAACCTTAGCTGAGGTTGCTCAGGAAATGGGTGCTCCAATATCTGCTTATGTTGAT

upper sequence: Vv12s0034g02160.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G19960.1 (Glycine max), 3'ss of exon 15
gtgagttgcaactagttgcctctgatatttgaaatctcaatcctttttgtcatttcatggttgtagtgtgcttgtcactcatttaattattggagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT
                             |||  || ||| |  |     | |||  || | | | |         | | || |  | | |    | |||||||||| || ||||| || ||||||||||| ||||| ||||| |||||||| || ||||||||| | ||||||  ||| |||||| | || ||||||
----------------------------gtgagttcacaaccaat---aacttttattgttaggaataaatcacaaattaatatcctcactttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTTGCTCAGAACATGGGTTTTCCTATTGCAAGCTATGTTGAT

upper sequence: Vv12s0034g02160.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
gtgagttgcaactagttgcctctgatatttgaaatctcaatcctttttgtcatttcatggttgtagtgtgcttgtcactcatttaattattggagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT
                             |||  || ||| |  |     | |||  || | | | |         | | || |  | |||    | |||||||||| || ||||| || ||||||||||| ||||| ||||| ||||| || || ||||||||| | |||||| |||| |||||| | || ||||||
----------------------------gtgagttcgcaaccaat---aacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT

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|71882268|gb|DT031323.1|DT031323
EST:     ATTTTGCCCCTACTTTTGCAACACTATTTAACCCTCTAATGAAATTTGCG                         AAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCA
genomic: ATTTTGCCCCTACTTTTGCAACACTATTTAACCCTCTAATGAAATTTGCGgtgagttgca ... gagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCA
EST: gi|71887505|gb|DT036560.1|DT036560
EST:     ATTTTGCCCCTACTTTTGCAACACTATTTAACCCTCTAATGAAATTTGCG                         AAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCA
genomic: ATTTTGCCCCTACTTTTGCAACACTATTTAACCCTCTAATGAAATTTGCGgtgagttgca ... gagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcatttcatggttgtagtgtgcttgtcactcatttaattattggagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT
                                 atttaat  putative branch site (score: 4)
                             actcatttaattatt  TA-rich tract