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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAATCTTTGATTGTTGGTAAGGCTGCTATTGGAAATATGTTAGGTGGCATTGGCTATTTCTATGGCCAATCAAAAATTTCACTCCCAAAAAACAATAATgtaagttatttaaatttgtttctatgttgctggctttctcttaaagttgcatatcacttgtttgacatgactgttatacattaacatttcaatcatatgt...

Basic information

species Vitis vinifera
transcript Vv01s0010g03300.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 5'ss of exon 9
TGAATCTTTGATTGTTGGTAAGGCTGCTATTGGAAATATGTTAGGTGGCATTGGCTATTTCTATGGCCAATCAAAAATTTCACTCCCAAAAAACAATAATgtaagttatttaaatttgtttctatgttgctggctttctcttaaag---ttgcatatca--cttgtttgacatgact--gttatacattaacatttcaatcatatgt------------------------------------------------------------------------------------
  ||   ||   |||||||   |||||| |   |||| |  | ||||| ||||||||||||||||| || ||||||||| |||| ||||||     ||  ||||||| |  |   ||   |     ||     ||||  || | ||   |||||  | |   || |   |  ||| |  ||    |     | | | | |  | ||                                                                                     
CAAAGAATTATCTGTTGGTGTTGCTGCTTTATCAAATCTTCTTGGTGGAATTGGCTATTTCTATGGGCAGTCAAAAATTGCACTTCCAAAAGGTTTTACAgtaagttttagagtgttacctgataattagatccttttcctaatagctattgcagctgaactttatgctatctgatttagtcccccccccccttcttattactgtgctatcttttgtagatctgatataaatcctaggcgattacacatcacactcaaacaaaatctaatgcttcaagagtttccttgcag

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA05G27890.1 (Glycine max), 5'ss of exon 9
TGAATCTTTGATTGTTGGTAAGGCTGCTATTGGAAATATGTTAGGTGGCATTGGCTATTTCTATGGCCAATCAAAAATTTCACTCCCAAAAAACAATAATgtaagttatttaaatttgtttctatgttgctggct-ttctcttaaagttgcatatcacttgt-ttgacatgactgt-tatacattaacatttcaatcatatgt---------------------------------------------------------------
 |||||  |   |||||||||||| ||| |||||||  ||||||||||||||||||| |||||||| || ||||| ||| |  |  ||| || | ||||||||||||| ||   |    |  | ||||  |     ||||  |  |   | || |||   |  | | |||  |||| ||||  |    || ||  |  ||  |                                                               
AGAATCCATATCTGTTGGTAAGGCAGCTGTTGGAAACTTGTTAGGTGGCATTGGCTACTTCTATGGTCAGTCAAAGATTGCTGTTTCAAGAATCTATAATgtaagttactttggtaatgtagtttgttatttatagttcttattgaacagtatgtcataggcataggcatagctgtgtatagctatttatctcctttgtacctttcaattagctgtcatcaatttagagctcgggcagatatgcagtggattgtttcccttttcag

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA08G10870.1 (Glycine max), 5'ss of exon 9
--------TGAATCTTTGATTGTTGGTAAGGCTGCTATTGGAAATATGTTAGGTGGCATTGGCTATTTCTATGGCCAATCAAAAATTTCACTCCCAAAAAACAATAATgtaagttatttaaatttgtttctatgttgctggctttctcttaaagttgcatatcacttgtttgacatgactgttatacattaacatttcaatcatatgt
         ||| | ||   |||||||||||||||| |||||||  | ||||||||||| ||||| ||||||||||| | ||| ||| | ||  ||| || |  |||||||||||| || | ||||||| | | | |     ||  | || |||| | ||  |||  |     | | | |  |                         
GTGGATTCCGAAGCCTTATCTGTTGGTAAGGCTGCTGTTGGAAACTTATTAGGTGGCATCGGCTACTTCTATGGCCAgtaaaagattgctctttcaagaatccttaatgtaagttactttattttgttttt-tatag-----ttcttattgaagt-gtatgccaccagccaccccttaatagtg------------------------

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA05G27900.1 (Glycine max), 5'ss of exon 9
TGAATCTTTGATTGTTGGTAAGGCTGCTATTGGAAATATGTTAGGTGGCATTGGCTATTTCTATGGCCAATCAAAAATTTCACTCCCAAAAAACAATAATgtaagttatttaaatttgtttctatgttgctggctttctcttaaagttgcatatcacttgtttg-acatgactgttatacattaacatttcaatcatatgt----
 ||| | ||   |||||||||||||||| |||||||  | |||||||| || ||||| ||||||||||| ||||| ||| | ||  ||| || |  |||||||||||| || | ||||||| |    |   | | || |   |  ||     | | |||  | |  ||| ||| | | |  | |  ||   ||   |        
CGAAGCCTTATCTGTTGGTAAGGCTGCTGTTGGAAACTTATTAGGTGGAATCGGCTACTTCTATGGCCAGTCAAAGATTGCTCTTTCAAGAATCCTTAATgtaagttactttattttgttttt----tatagtccttattgaagtgtatgccaccccttaatagtgcataact-tgacatgtgattatcataaatgtgaaaactt

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|77583689|gb|DV220878.1|DV220878
EST:     ATTTCACTCCC-AAAAACAATAAT                         TTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACA
genomic: ATTTCACTCCCAAAAAACAATAATgtaagttatt ... tctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACA