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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag

Basic information

species Vitis vinifera
transcript Vv04s0044g02020.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttt-tagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
||| |||||||| ||||||||||| ||||||||||| ||||| || ||||| |||||||| || ||||| || || || || |||||||||||||| ||||||  |     ||| | | ||||   | | |||  | | | | | |  ||  |  |         |||  ||| ||                                                           
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagt-----tttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag----------------------------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtatt--ccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
| ||||||| || ||||||||||||||||||||||||||||| || ||||| ||| ||||||| |||||||| || || || || |||||||| || |||||  |  |       |||||| |        |  ||||    | |     | |  | || | | |   | ||  | |  || |||||                                                 
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattcta------aagtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag--------------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 10
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgt-tcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
||||||||| || ||||||||||||||||||||||||||||| || ||||| ||| | ||||| ||||| || || || || || |||||||| || ||||| |  |||   || |||    ||  | |||| ||| | |              |  || || | || |  ||        |||| |  || | |  | || |||                              
ACTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTCTTCTTTAAAATGCGGGTTGCTGGTGTTCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagcttcgaggcaata-gtttata-atacagc------------cgatcctgttatatcatccatag-----ctgttagaataacgatgactttttag-----------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 15
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagtt--ttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
  | ||||| |||||||||||||| |||||||||||||| || |||||||| ||| ||||||||||||| ||||||||||||||||||||||| || |||||     | ||||   |||  | |     |  | | |   | ||| || ||  || ||| |  |  | |||||| | ||  ||||                                                   
GTTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTCTTTTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataataccttt---gttgatgt-----tgcacaaactttctttggaattattttgtcacactggtattttatctcttggttgtag-------------------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA11G09480.1 (Glycine max), 5'ss of exon 12
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttctta-atcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
| | ||||| |||||||||||||| |||||||||||||| ||||||||||| ||| | ||||||||||| || |||||||||||||||||||| || |||||  |   || ||  | |   || ||    |     |      ||| ||  ||| | ||      |   | || | ||| ||  ||     | ||   ||| |  |||  | |  || |||  |||| | || ||
ATTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGGGTTGCAGGTGTTCTTCACATATTCCAGTTTGAAACAAAGCAGgtattggcatgttcagggacactgtactcttcctagttcttaatttcgacctttggact------tgactcatatcttcattactt-----tgaagttattttattttattggtattttat--cattctttgaag

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA01G35950.1 (Glycine max), 5'ss of exon 12
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
  | || || |||||||||||||| |||||||||||||| ||||||||||| ||| ||||||||||||| || |||||||| ||||||||||| || |||||  |||   |  | ||   |  | |       | || || |||   | |||  | || |    |  || || | ||| ||  ||     |  |   ||| |   ||  |||  || |||  |||| | || ||
GTTGAGGGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGAGTTGCAGGTGTTCTTCACATATTTCAGTTTGAAACAAAGCAGgta-ttagcatgctcagggacattctac-----tctaccaatttcttaatttcggcctttggacttattcatatcttcattactt-----tggagttattttatattattagtattttat--cattctttgaag

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA09G32740.1 (Glycine max), 5'ss of exon 12
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctat-atgtatatatataacatttttagagt-tttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
  | ||||| |||||||||||||| ||||| |||||||| || || ||||| ||| ||||||||||||| ||||||||||||||||||||||| || |||||     | ||||   | |  | | |   | |    |     |||   | | ||| | |||  |  | |||||| ||||  ||||                                                   
GTTGAGAGACATAATGCAATTTGGAAGCAGTAATACTGCAGTCTTCTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataatacctttgttgatgatgtcacacaaacccttgtttctttggaattattttgcctcactgatattttatctatttgttgtag-------------------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
|||| | || || ||||||||||| ||||| || |||||||| ||||| || |||||||| || ||||| || |||||||| ||||| || || |||||||||  ||| | |     ||| |  ||   |||||     ||      | |  |  |    | ||   |||  |||   ||||| ||  | |                                           
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtt--taaacatcactatttgtggatcattatat----tatgaagcaattccttatgagatattcaatttgggtaa--cttgtatgtttgtag-----------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 5'ss of exon 12
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
  |  ||||||| ||||| ||||| || || || ||||||||||||||||| ||| |||| || || ||||| || || || ||||| ||||| || |||||   || ||||   | | |||||    |||    | |   || |   || |   |      ||  |||||  |||   |        ||    |||||   | |   | ||                      
GTTGCGAGATATCATGCAGTTTGGCAGTAGTAACACTGCTGTATTTTTTAAAATGCGAGTCGCTGGAGTCCTACATATTTTTCAGTTCGAAACAAAGCAGgtatctattctt---aatgtctatggtcatac---tcaagcttctgcggtgtggat------ttaattttagttatgagtcaacaatttaatgtaaaatccctttgaaacag----------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: EFJ30174 (Selaginella moellendorffii), 5'ss of exon 11
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
 || ||||| || ||||||||||| || |||||||| || || |||||||| ||| | || || || ||  | ||||| || ||||||||||||||||||||   |    || ||  ||||  | |   | |     | |||| |   ||   ||                                                                               
GCTGAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgtgtct----ttgtggctttccgtgtagttcttctctaaatttct---gtcgcag-------------------------------------------------------------------------------

upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: EFJ06058 (Selaginella moellendorffii), 5'ss of exon 11
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag
 || ||||| || ||||||||||| || |||||||| || || |||||||| ||| | || || || ||  | ||||| || ||||||||||||||||||||  ||    || ||  ||||  | |   | |     | |||| |   ||   ||                                                                               
GCTTAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgtgttt----ttgtggctttccgtgtagttcttctctaaatttct---gtcgcag-------------------------------------------------------------------------------

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|34546513|gb|CF514745.1|CF514745
EST:     AGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAG                         GGAGAAGAAATTTGTGTTGCTCTTCAGACGCATATAAATGATGTTATGTTG
genomic: AGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatc ... ttttatgcagGGAGAAGAAATTTGTGTTGCTCTTCAGACGCATATAAATGATGTTATGTTG
EST: gi|34544452|gb|CF512684.1|CF512684
EST:     AGACCATAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAG                         GGAGAAGAAATTTGTGTTGCTCTTCAGACGCATATAAATGATGTTATGTTG
genomic: AGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatc ... ttttatgcagGGAGAAGAAATTTGTGTTGCTCTTCAGACGCATATAAATGATGTTATGTTG