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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataaatggggttgaattcctgtcttaagtattttacagtttctcttttgtatgtctgcttgatacaaattgtttctatgatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG

Basic information

species Vitis vinifera
transcript Vv10s0116g00100.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 13
gtaaataaatggggttgaattcctgtcttaagtattttacagtttctctt-----ttgtatgtctgcttgatacaaattgtttctatgatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG
||     ||   | ||   || |  || |    |  | |   ||  | ||     || ||| |||   |  |   | |    ||  |||  ||| |||||| |||||||||||||| |||||||||||||| ||||||||||| ||||| ||||||||  |||||||||||||||| ||||| ||||||||||||||||
gttggagaagaagcttttgtttccttcatgcacagctgaacattgtttttgtatcttttatttctcacttctttgattaccatcattgagttttaacagGTATCAACTCAGATGGTCGGTTCATTTGGTTATAGTGCTCCTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGG

upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 13
gtaaataaatggggttgaattcctgtcttaagtattttacagt--ttctcttttgtatgtctgcttgataca--aattgtttctat-gatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG
||   ||||   |  |   || |  || |   ||  | |   |  || |  | | |||   | ||   ||||   |||      || ||  ||  |||||| |||||||||||||| |||||||| ||||| ||||||||||| ||||| ||||| ||  |||||||||||||||| ||||| ||||||||||||||||
gttggtaaagatgcctttgtttccttcatgcatagctgaacatggtttttgtatctattatttctcactacattgattacaatcatcgagtttcaacagGTATCAACTCAGATGGTCGGTTCATTCGGTTATAGTGCTCCTGAGTTTGCATTATCAGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGG

upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaaataaatggggttgaattcctgtcttaagtattttacagtttctcttttgtatgtctgcttgatacaaattgtttctatgatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG
                 |||  |  |   ||| ||   |     |||  ||   |  | | ||   |      || || ||||    |  |||||||||||||||  |||| ||||||||||| ||||| ||||| || |||||  | || || || ||||| || ||||| ||||| ||||  ||||| || |
---------------gtaataacaatggaaagaatcagatttaatctaattgaaacattttctgagtctttcatggtt-tatgcatgtcaacagGTTTCAACTCAAGTGGTAGGTTCATTTGGATACAGCGCTCCAGAGTTTGCACTGTCGGGAATTTACACAGTGAAAAGTGATGTATACACTTTTGGAGTAG

upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: EFJ34030 (Selaginella moellendorffii), 3'ss of exon 3
gtaaataaatggggttgaattcctgtcttaagtattttacagtttctcttttgtatgtctgcttgatacaaattgtttctatgatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG
            |  ||||   ||      ||   |||  |  ||||||||| |   | |||| ||||  ||           |    || |||||| |  | || ||| | ||||| ||||| ||||||||||| || |||||  | |||||| | || || || ||||||||||||||||| ||||| ||||
------------gtctgaagaact------agcgcttt-taaattctcttttattcctttgct-gataggaa-----------aaaactggcagGTTGCGGCACAAATGCTGGGTTCCTTTGGCTACAGTGCTCCGGAGTTTGCAATGTCTGGTGTTTATACCGTTAAAAGCGATGTGTACAGTTTTGGAGTGG

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|33410441|gb|CF216068.1|CF216068
EST:     ATTTATCAGACTGTGGCCTAGCTGCCCTCACACCAAACACAGAGCGACAG                         GTTTCAACTCAGATGGCTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCT
genomic: ATTTATCAGACTGTGGCCTAGCTGCCCTCACACCAAACACAGAGCGACAGgtaaataaat ... tgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCT
EST: gi|33407798|gb|CF213425.1|CF213425
EST:     ATTTATCAGACTGTGGCCTAGCTGCCCTCACACCAAACACAGAGCGACAG                         GTTTCAACTCAGATGGCTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCT
genomic: ATTTATCAGACTGTGGCCTAGCTGCCCTCACACCAAACACAGAGCGACAGgtaaataaat ... tgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtttctcttttgtatgtctgcttgatacaaattgtttctatgatgtttgacagGTTTCAACTCAGATGGTTGGTTCATTTGGTTACAGTGCTCCTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGG
                     gcttgat  putative branch site (score: 5)
                          atacaaatt  TA-rich tract