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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTATATTTGCCTTGATGGACCGAAGTGATTCAGAATTGGGGGAGCCTCTCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatccttatttcttttggtttccatggaattcactatccttacctctatgatttgagaatcatgttgtgttcctttgaattccttgtgttttaccttt...

Basic information

species Vitis vinifera
transcript Vv12s0028g03130.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA12G13410.1 (Glycine max), 5'ss of exon 17
AATTATATTTGCCTTGATGGACCGAAGTGATTCAGAATTGGGGGAGCCTCTCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaa----------------tccttatttcttttggttt--ccatggaattcactatccttacctctatgatttga--gaatcatgttgtgttcctttgaattccttgtgttttaccttt----------------------------------------------
|||||||| | |  | |||||||| ||||| ||||| ||||| ||||| || ||| ||||||| ||||| |||||||||||||| || ||||| ||||||||||                   | || ||| ||  |||    || || |    | |  | |||||  | || |     |||       |     ||   | |  | | ||| | |  ||                                              
AATTATATATACACTAATGGACCGGAGTGAGTCAGAGTTGGGAGAGCCCCTTACACGACTTTTACCTCTCGGTCTTGGTCTTCTATATCTTGGAAAGCAGgtaaatagatgtctggcagtctatcatctctgtttttttaattatagattattttcttttcacctcattaatcttctttaatttctgaataacaattgatagtggtagggttctgctattgtgaaggtgtaatactcactctttacattgtgctttgttactgcag

upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: PP1S3_553V6.1 (Physcomitrella patens), 5'ss of exon 17
AATTATATTTGCCTTGATGGACCGAAGTGATTCAGAATTGGGGGAGCCTCTCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatccttatttcttttggtttccatggaattcactatccttacctctatgatttgagaatcatgttgtgttcctttgaattccttgtgttttaccttt-------------------------------------------------------------------------------------
 ||| |  | || ||||||||||| || || || ||  | || || ||  | ||  |  | ||   ||||||||| |||||||| |||||||||||||||||| |      ||       ||||||||  || |  |||       |||    |  ||   |  | |     |   |   |||     |  |  |   ||                                                                                     
TATTGTCCTCGCTTTGATGGACCGCAGCGAGTCTGAGCTTGGAGAACCATTGACTCGCTTCTTATGTCTTGGTCTAGGTCTTCTGTACCTTGGGAAGCAGgtactgtgctatttggccaatttccatgttatacgatatagcactttctccattccgattgtagtatgtaaattgctaagattgtagttactgcaatcttgttcaatttgagacttttaaaggagaaaaccttaagtaaaggtttttaatgtcgaattggaatcatattgtttcgtcgtatccag

upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: PP1S414_22V6.1 (Physcomitrella patens), 5'ss of exon 17
AATTATATTTGCCTTGATGGACCGAAGTGATTCAGAATTGGGGGAGCCTCTCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctt-----atttcttttggtt-tccatggaattcactatccttacctctatgatttgagaatcatgttgtgttcctttgaattcc-ttgtgttttaccttt
 ||| || |||||||||||||||| || ||  | ||| | || || ||| |  |  |  || |   |||||||||||||||||| |||||||||||||||||| | |||     |  ||| |   || | | || ||  |||    || | ||| ||  |   ||| | | | ||  | |  | || ||   || |||| |      
TATTGTACTTGCCTTGATGGACCGTAGCGAGGCTGAACTTGGAGAACCTTTAGCCCGCTTTCTATGTCTTGGTCTTGGTCTTCTCTACCTTGGGAAGCAGgtacttcttttgctacctctctaatttgttcttgaaacacacgtagctcagctccattgt---agatttaagatggatactgtagattttaattttgttctga----

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|161706069|gb|FC056232.1|FC056232
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|30304206|gb|CB981000.1|CB981000
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAA-TA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|110707945|gb|EE084922.1|EE084922
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|30305222|gb|CB982016.1|CB982016
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGCGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|110699529|gb|EE076605.1|EE076605
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|30305288|gb|CB982082.1|CB982082
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGCGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
EST: gi|37187493|gb|CF606846.1|CF606846
EST:     TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAG                         GAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA
genomic: TCACAAGACTTTTGCCTCTTGGTCTTGGTCTTCTTTACCTTGGGAAGCAGgtaatcctta ... ggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATA