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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttattgtcaagttatgtattaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC

Basic information

species Vitis vinifera
transcript Vv11s0016g00530.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G07780.1 (Glycine max), 3'ss of exon 4
gtacgttatt-gtcaagttatgtattaaatgaatgttcttctggatgtggatttctt--gttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
|||| | |   || |  | || |||  | ||||   |    || |  |   ||| ||   || ||     | | ||||   |      | | || |   || |  ||| | | | || ||||| ||||| | ||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| |||||
gtacatcacgagtgatctgatctatgtagtgaaatgttgcttgaaattaactttatttaatttttttgaaataccattttccatttacaagagg-gttgaattactgaattttg-tgcagGACTTGGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTTACTGAAAC

upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G17370.1 (Glycine max), 3'ss of exon 6
gtacgttatt-gtcaagttatgtattaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtc-tcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
|||| | |   || |  | || |||  | ||||  |  | || ||  |  ||||  |||| ||  |  | | | ||   |  |  ||   |  |       || || || |  ||| ||||| | ||| | ||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| |||||
gtacatcacgagtgatctgatctatgtagtgaa-atgttgcttgaaattaattttatgttttttgaa-ataccgttttcc--acttacaagagg-------gtcgaatcatttgtgcagGACGTAGAACAATACAATAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTTACTGAAAC

upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G05130.1 (Glycine max), 3'ss of exon 5
gtacgttatt-gtcaagttatgtattaaatgaa-tgttcttctggat---gtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
|||| |   | || |  | || |||  | |||| ||||  |    ||    |  ||||  | || ||     | | ||||   |      | | || | | || |  |||   | | || ||||| | ||| | ||||| ||||||||||| |||||||||||||||||||||||||||||||| ||||||||||| || |||||
gtacatcgctagtgatctgatctatgtagtgaaatgttgcttgaaattaactttatttaatttttttttgaaataccattttccatttacaagagg-gtcgaattactgaactttg-tgcagGACGTAGAACAATACAACAAATTGGAAGATCCAACTGATGAGGAAAATGACATGTTGGATCTAGCTTTTGGGCTCACTGAAAC

upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G05450.1 (Arabidopsis thaliana), 3'ss of exon 6
gtacgttattgtcaagttatgtattaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
                                        |  |  |    |||||    |   |  |||||            | |  |||  ||| ||   || | |   |  |||| |  |||||||| || ||| | ||||| ||||| ||||| || ||||| ||| | ||||| ||||||||||| ||||||||
---------------------------------------gtaaacata---ttcttccattattaatagatcgaatcctctgcttttccggaaactagctaa-gattgtatttacagGATACTGAATACTATAACAAACTTGAAGAACCAACAGATGAAGAGAATGATATGCTTGATCTTGCTTTTGGGCTCACAGAAAC

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|110379961|gb|EC945192.1|EC945192
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
EST: gi|30252686|gb|CB970237.1|CB970237
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
EST: gi|71887854|gb|DT036909.1|DT036909
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGACATGTTGGATCTGGCTTTTGGGCTTACAGAAAC
                              gcctaac  putative branch site (score: 2)