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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgtactcaattg...

Basic information

species Vitis vinifera
transcript Vv18s0001g09320.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgta-atgacaat-----------------cgtgtgttta-gctaaa---------ttatgttatctcctggtggtcctgttttttcttt---aatccagtaagcaatgccat---ggttgagtgtactcaattg-
|| ||||||||||| |||||||| ||||| || ||||| |||||||||||||| ||||| ||||||||     ||| |                 | |||||||| ||| |          || | |       ||   |  ||| ||| |   |   |||   | | ||| |  |||   | |  | | |||   |    
ATATTTCGCAAGGAACCATTCTTCTATGGCCACGATAACCATGACCAGCTTGTCAAAATAGCCAAGgtttgctacagttcacatagacgcatgcgcatgtgtttatgctgagcatttgcacttgtatctgtatatgtctgctctgctttctgcctgaaaatattgcaggcattagcatattgatgaactatacctgagcag

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G22250.1 (Glycine max), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgt---actcaattg----
|| ||||||||||| || |||||||||||||| || || |||||||||||||| ||||| || |||||||     || | | ||| |||    |  |   ||  |    |  || ||||  | || |   | |||    |||||| || || ||| |   |||  | |     
ATATTTCGCAAGGAACCTTTCTTTTATGGTCACGACAACCATGACCAGCTTGTCAAAATAGCTAAGgtaacatttatggag-gttcagcagtgtc-taaaattgcaaaattatcttgttgatgctgtg--caagt---taatgccttgttttagtttctgactataatatttt

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagca-atgccatggtt---gagtgtactcaattg
|| |||||||| || || ||||||||||||||||| || ||||| |||||||| ||||| || ||||||||  | ||||||  ||    |   ||||   |     ||||  || || | |  || ||   ||||||    |||   | |||   || | |  |  ||| 
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaatatccatcgtggtttgcaattgcttata--aatgtttggttatcttgctgtcactgta-cacagtaatttcatgtgttagttcgagactatgatatatt-

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagca-atgccatggtt---gagtgtactcaattg
|| |||||||| || || ||||||||||||||||| || ||||| |||||||| ||||| || |||||||   |  || ||  ||    | | ||||   |     ||||  || || | |  |  ||   ||||||    |||   |||||   || | |  |  ||| 
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttata--agtgtttggttatcttgctgtcaccata-cacagtaatttcatgttttggttccagattatgatatatt-

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgt---actcaattg----
|| ||||||||||| || || ||||||||||| || || ||||| |||||||| ||||| || |||||||     || | | ||| || |||  |||   ||  |    |  || ||||  | || |   | |||    |||| |||| || ||| |   |||  | |     
ATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatttatggag-gttcag-taatgtatagaattgcaaaattatcttgttgatgctgtg--caagt---taatgtcatgttttagtttctgactataatatttt

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 5'ss of exon 7
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaat-gacaatcgtgtgt----ttagc--taaatta-----tgttatctcctggtggtcctgttttttctttaatccagtaag---caatgccatggttgagt----gtactcaattg-------------------------
|| ||||| |||||||||||||||||||| ||||| ||| |||| |||||||| || |||||||||||  | |  ||||   | |    | |||  | ||| |     || |   || |  |  | |||  |  | | |  ||| ||      ||| |||||| || | |    || || |||                           
ATCTTTCGGAAGGAGCCATTCTTTTATGGACATGACAATTATGATCAGCTTGTGAAGATTGCCAAGgtgctcggaaatctcatttactatcagccttcaatcagtcactgctcattcgtaatttttctgaatcgtttctcctcctgtgtttctcaaggccatgtttaaatcttcgttctaaatctaatctttgttgttacctgaaatcag

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttcttta-atccagtaagcaatgccatggttgagtg--tactcaattg---
||||| ||||||||||| || || ||||||||||| ||| |||| |||||||| || || || |||||||   ||||     ||||||  |||  ||    | |  ||   ||| |||| | | | ||  |   | ||     ||  | ||   |||  || |    |    
ATTTTCCGCAAGGAGCCGTTTTTCTATGGTCATGACAATTATGATCAGCTTGTCAAGATCGCTAAGgtaagttcaat-----gtttagtaaaacgatcacctttgttg-cagtcttgttatctttgtatgttttgaaactgtagctctagtgcggtgcatattttgcttcga

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 7
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgt--aatgacaat-cgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgta---ctcaattg-------------------------------------
|| ||||| |||||||||||||||||||| ||||| ||| |||| || ||||| || ||||| |||||  | || || | | |   |  |  |   ||     |  |     |   | | || ||| |||  |  |  |||  ||   |  ||     | |   |  | |||                                     
ATATTTCGGAAGGAGCCATTCTTTTATGGGCATGACAATTATGATCAACTTGTGAAGATTGCTAAGgtgcagtggcagttcatacatagatttgccttcaagcagttatatatca-ctttttatttattttgtataaaaagtcatattactgtctttcgcaacgccaagttgtgttttgagccttatctttgtgggtgtctgataccag

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ20478 (Selaginella moellendorffii), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgtactcaattg
|| |||||||| || |||||||||||||| ||||| ||||| || ||||| || || |||||||||||  | |     |  |||    ||   |  || | | |  ||  | |    | |  | ||||                                      
ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgttttaaacgcagaatgt----ctgtttcttgctgt-ttttgacgttggcttgtggtgtttag-------------------------------------

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ28543 (Selaginella moellendorffii), 5'ss of exon 6
ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagcaatgccatggttgagtgtactcaattg
|| |||||||| || |||||||||||||| ||||| ||||| || ||||| || || |||||||||||  | |     |  ||| |   |      || | | |  ||  | |    | |  | ||||                                      
ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgttttaaacccagaatgtctgtttgt----tgctgt-ttttgacgttggcttgtggtgtttag-------------------------------------

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|26265141|gb|CA816204.1|CA816204
EST:     CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG                         GTTCTTGGGACAGATGAGCTGAATGCATATTTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaa ... atctcttcagGTTCTTGGGACAGATGAGCTAAATGCATATTTGAACAAATATCGTTTAGAG
EST: gi|26267081|gb|CA818144.1|CA818144
EST:     CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG                         GTTCTTGGGACAGATGAGCTGAATGCATATTTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaa ... atctcttcagGTTCTTGGGACAGATGAGCTAAATGCATATTTGAACAAATATCGTTTAGAG
EST: gi|34549230|gb|CF517462.1|CF517462
EST:     CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG                         GTTCTTGGGACAGATGAGCTAAATGCATATTTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaa ... atctcttcagGTTCTTGGGACAGATGAGCTAAATGCATATTTGAACAAATATCGTTTAGAG