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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattttaaggatttgccttgctattatcataaaggttcttatggagctatttcatttatcactgatatggtgccttttataaatggtttgctgct...

Basic information

species Vitis vinifera
transcript Vv18s0001g02200.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g02200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G139031_T01 (Zea mays), 5'ss of exon 2
TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattttaaggatttgccttgctattatcataaaggttcttatgga-gctatttcatttatcactgatatggtgccttttataaatggtttgctgct--
|| |||||| || ||||||||||| ||||| || || ||||||||||| || || || |||||  ||||||| |||||||| || || ||||| ||| ||||  |   | ||  | | |  ||  || || | || || ||| | |     |||  | | | | |   |    | |  | |   ||   | |||   || |  
TTGCACTCTCCCAGGTGTTGGTCCAAAGGTCGCTGCCTGCATTGCTCTGTTCTCCCTTGATCAAAATCATGCTATTCCTGTCGACACACATGTTTGGAAGgt--atgctatattgctatatctcacttttgt-attaatgttgtaacaattgcttctacttctgttgtttcatttggacataccattgttagttcattgatat

upper sequence: Vv18s0001g02200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA06G12160.1 (Glycine max), 5'ss of exon 2
TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattttaaggatt--------tgccttgctatt--atca--taaaggttcttatggagctatttcatttatcactgatatgg-tgccttttataaatggtttgctgct
||  ||  |||| ||||| ||||| || ||||| || ||||||||||||||||| || |||||||| |||||  |||||||||| || || ||||||| ||| | | |   ||   ||        | | || ||  |  ||    ||  |  | || | ||    | | ||| |    | || ||| ||  | || |  |   || | |   
TTGTACGTTACCCGGTGTGGGTCCTAAAGTGGCTGCTTGCATTGCTCTCTTTTCGCTTGATCAGCACCATGCTGTTCCTGTTGACACACACGTGTGGCGGgtaagcttacaaaaagttgttatttattctttactgattgattgattattgcatattgtagaatgttatgattgagtgttaatttggatgtttcttttttaaacttgggtaag

upper sequence: Vv18s0001g02200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G21710.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtga-acattttaaggattt----gccttgctattatc--ataaaggttc--ttatggagctatttcatttatcactgatatggtgccttttataaatggtttgctgct-------
 |  ||  |||||||||||||||| ||||| ||||| ||||| ||||| ||||| || |||||||||  ||| ||||| ||||| || ||||| |||||||| | | | |  |  | |||    |  |||   |||    ||  || | |  |||   |    |     | |   | |  |   |   |||| |      || | |  |       
GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagtccatcggtttctatgtattgtacttacttaattgagatccaattacataatggtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag

upper sequence: Vv18s0001g02200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: PP1S189_64V6.1 (Physcomitrella patens), 5'ss of exon 2
TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattttaaggatttgccttgctattatcataaaggttcttatggagctatttcatttatcactgatat--ggtgccttttataaat--ggtttgctgct-----------------------------------------------------------
 |  ||  |||||||  |||| || || |||||||| |||||||| || ||||| || |||||||| ||||||||||| || ||||| || || |||||||||     || || |  | |   ||   ||  |     |   |||  |  || |||    || |   ||   |  |     |  | |   |  | || | ||||                                                           
GTGTACATTACCTGGAATTGGCCCTAAAGTGGCAGCTTGCATTGCACTGTTTTCCCTAGATCAGCACCATGCCATTCCCGTCGATACTCACGTATGGCAGgtgtg---ttcaaagcgtagaagtggagttgcccctttgaaccttgagatgcaattcttcttgtgcgtgtctttcgccatttcgtgtgggttggattaggtgctttacatggctccagcacatatgaggattaatttactcacatctccctctgcacttgcag

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|110394118|gb|EC958635.1|EC958635
EST:     TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAG                         ATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT
genomic: TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattt ... gatgggcaagATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT
EST: gi|30133863|gb|CB919202.1|CB919202
EST:     TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAG                         ATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT
genomic: TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattt ... gatgggcaagATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT
EST: gi|110388354|gb|EC953093.1|EC953093
EST:     TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAG                         ATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT
genomic: TTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtgaacattt ... gatgggcaagATTGCTACCAGATATCTCATCCCTGAGCTTGCAGGTGCCCGTCTGACACCT