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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag

Basic information

species Vitis vinifera
transcript Vv10s0003g04360.t01
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GRMZM2G402002_T01 (Zea mays), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag
||| |||||||| ||||| |||||| | |||   |||||||| || || |||||||| ||||| ||||||||||||||||| || ||| |  | |||||||| ||        | ||  |    |      || | ||    | |  | |    ||      |||    | | |||||  |  | |  || || || |    || |     |                              
TGGCCACCATGGGCACATACTTGCCTTGTATACTCAAACACGTGGTGACTTCATTGTGGTTGGCGATCTGATGAAATCAATATCCTTGCTGGTGTATAAGgtgagtc------ttttttaactgttggcgatcttattatttgtatttttcttttttgtgtcagtcccta-attgttggttgggctgattgctattgtgtatttttgggcag------------------------------

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagtt--aaaagagtgttgtgtttgtttgt-tactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag
|||||| || |||||||| || || || ||||| |||||  | |||||||| ||||| ||||||||||||||||| ||||| || |||||||| || |||||||  |    |||  | |   | || |  || | |  |||||  |     ||| | |     | | | | |||    | || |      ||| | | | ||   | |     || ||   | |||    |||| || ||| || ||      
TGGACATCACGGACACATCCTAGCACTTTATGTGCAAACTAGAGGAGATTTTATTGTAGTTGGTGATCTGATGAAGTCAATTTCCTTGTTAATCTACAAGgtaaattttaaactgttgtgacactagtttctgtctggttttgttaaatttcaactgttcttctgcttagtgttttggatgaataactgatttttgtatatataatgagtacattcttttggaatgataaattgttcttttattgatag----

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA12G08330.1 (Glycine max), 5'ss of exon 6
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagtt--aaaagagtgttgtgtttgtttgt-tactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag
|||||| ||||||||||| || || || ||||| |||||  | |||||||| ||||| |||||||||| |||||| ||||| || |||||||| || |||||||  |    |||  | |   | || || || | |  |||||  |     ||| | |     | | | | |||    | || |      ||| | | | ||   | |     || ||   | |||    ||||     || ||||||   ||
TGGACATCATGGACACATCCTAGCACTTTATGTGCAAACTAGAGGAGATTTTATTGTAGTTGGTGATCGGATGAAGTCAATTTCCTTGTTAATCTACAAGgtaaattttaaactgttgtgacactagtctctgtctggttttgttaaatttcaactgttcttctgcttagtgttttggatgaataactgatttttgtatatataatgagtacattcttttggaatgataaattg-----ttctttattgatag

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA05G30530.1 (Glycine max), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagttaaaagagtgttg-tgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag---
|||||| ||||| ||||| || || || ||||| |||||  | |||||||| ||||| ||||||||||||||||| || || || |||||||| || |||||||  |    |||  | |   | || |  || | |  |||||  |     ||| | | | | | | |   |||      |  |   || || |||||   | | ||         |     | |  || || |   || ||  || |      
TGGACATCATGGGCACATCCTAGCACTTTATGTGCAAACTAGAGGAGATTTTATTGTAGTTGGTGATCTGATGAAGTCGATTTCCTTGTTAATCTACAAGgtaaattttaaactgttgtgacactagtttctgtctggttttgttaaatttcaactgttgtgctgcttatcgttttggatgaataactgattttttgtatatataatgagtacaccatgttcttttggaatgataagttgttccttattgatag

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttg-ttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag
 ||||| || ||||||||||| || |||||||| || || || ||||| || || |||||||||||||| |||||||||||||| || ||  | || ||||||   | |||  |||  | | |||   ||||   |||   | |   | |    |        ||| |    || |||| | || | | ||| ||||       ||| || |                               
CGGACATCACGGACACATTCTAGCTCTCTATGTGCAGACCCGTGGAGACTTTATAGTTGTTGGTGATCTCATGAAATCAATCTCCTTATTGCTATACAAGgta---taact--tctagacgaaat---ttgtgtgtttaaaaactgatctactat--------gttcatttggtattgtttctgatggcttattcttgaa----tgtaaaag-------------------------------

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttg--ttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag
|||||| || || ||||| || || ||||| || || || || ||||| ||||| | |||||||||||| ||||||||||||||||| || || || ||||||| | |  |    | | |  |||   || ||| | |       | ||   | | ||    |  |   ||| |||| ||||     |   |   |  |   | ||| | ||   ||| || ||                    
TGGACATCACGGTCACATACTAGCTCTCTACGTGCAGACCCGTGGAGACTTCATCGCTGTTGGTGATCTCATGAAATCAATCTCTTTATTGATCTACAAGgtaaaacgttttggatacga--aattgtttttccgtctttatatgaata---catgcc----aaatcttagattgttatgttcacaagaactcaccggactcttttgattatctgtgtttgttttaaag---------------

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: PP1S458_4V6.1 (Physcomitrella patens), 5'ss of exon 18
TGGACACCATGGACACATTCTTGCCCTCTATGTACAAACACGGGGAGATTTCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaaga--tgactaatcttcaagtaatcccttgtccttttggcagcaagtatgg--cgttccctggagttaaaagagtgttgtgtttgt-ttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcag-------------------------------
    ||||||||||| ||  | || || ||||| ||| |||| |||||||| |||||||| || ||| ||||||||||||| ||  |  | ||||| ||||| ||   |  | || || |  | |||   |   |     |        | |||  | || |||  ||   ||    | |      | |  | | |   || | | |  ||| | ||||     | ||     || |||||   | |                               
CTCTCACCATGGACATATCTTGGCTCTGTATGTTCAATCACGTGGAGATTTTATTGTTGTGGGAGATTTGATGAAATCAATTTCGCTTCTTATTTACAAGgttagtacttcccaaactactgg-aatatatcagcacaaagttgtttcatttggtccttttcctctagactaagctctttcccccatctactttcatcttttttgacgagttcaaggattatgaaatgaggaattgtttatcgcctgaagtgatgatattctttactgtatctgacag

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|161721380|gb|FC071058.1|FC071058
EST:     TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAG                         CATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
genomic: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgac ... ttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
EST: gi|110698228|gb|EE075535.1|EE075535
EST:     TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAG                         CATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
genomic: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgac ... ttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG