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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaattaattaataattaggaaagtgtttgtatacttctaagttctaatgaaacttatatccatgtgaaatgtaactgaaccagttcctttttttacag

Basic information

species Vitis vinifera
transcript Vv17s0000g00430.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os09g33580.1 (Oryza sativa), 5'ss of exon 4
GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaat-taattaataattaggaaagtgtttgtatacttctaagttctaatgaaacttatatccatgtgaaatgtaactgaaccagttcctttttttacag
|| ||||||||||| || || |||||||| || ||||||||||| |||||| ||||||| ||||| |||||||||||  | | ||  |   |  |||    ||  |        |||| |     | ||   |   ||   |  | | | ||   ||                
GTCACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTGCAGTCCTTACAGAACCAAGTTGAGgtaattaacatgactagaatacaaaaaaaaaattaaaggtacaagagtttttgcttagctataacatattctacctctgattgtgacacag-------------

upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os08g42470.1 (Oryza sativa), 5'ss of exon 4
GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaattaattaataattaggaaagtgtttgtatacttctaagttctaatgaaacttatatccatgtgaaatgtaactgaaccagttcctttttttacag
|||||||||||||| || || |||||||| || ||||||||||| |||||  | ||||| ||||| ||||||    | |||  || ||| |  |||     |  |||||||  | || | |  ||||||    |    ||| || |   |      || |  | |  | |||
GTTACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTACAGTCGTTGCAGAACCAAGTTGAGgtac---actaaaaaaaaataaaaaaaagaagta-atacttc--atttttga--aaactttggacaggatgacattttctttgttttgt-ctatatggtgcag

upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM5G882527_T04 (Zea mays), 5'ss of exon 4
GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaattaattaataattaggaaa-gtgtttgtatacttctaagttctaa-----tgaaacttatatccat--gtgaaatgtaactga---accagttcctttttttacag
||||||||||||||||| ||  ||||||| || ||||||||||| |||||||| ||||| ||||| |||||||  ||  ||  || ||  ||||    ||      || | || ||| ||||     ||  |||| || |        |  || || | |   ||   | ||| ||||| |||
GTTACTGGAAAGGCCCTGATTCTGGATGAGATTATCAACTATGTGCAGTCCCTGCAGAACCAAGTTGAGgtaaaaaaagaaaaaaaaagcaggagccatgaagaattaatactcagtgctaaaaatgtggcacttctagctgacaacaatttgcaaatcatatactcctgcctgttttttcag

upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM5G882527_T01 (Zea mays), 5'ss of exon 1
-------------------------------GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaattaattaataattaggaaa-gtgtttgtatacttctaagttctaa-----tgaaacttatatccatgtgaaat--gtaactga---accagttcctttttttacag
                               ||||||||||||||||| ||  ||||||| || ||||||||||| |||||||| ||||| ||||| |||||||  ||  ||  || ||  ||||    ||      || | || ||| ||||     ||  |||| || |       |||  | || | |   ||   | ||| ||||| |||
AGAAGGAACAAATGTGCTTTTTTTTGGACAGGTTACTGGAAAGGCCCTGATTCTGGATGAGATTATCAACTATGTGCAGTCCCTGCAGAACCAAGTTGAGgtaaaaaaagaaaaaaaaagcaggagccatgaagaattaatactcagtgctaaaaatgtggcacttctagctgacaacaatttgcaaatcatatactcctgcctgttttttcag

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|110369449|gb|EC933609.1|EC933609
EST:     TGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG                         TTCCTCTCTATGAAGCTTGCTTCTGTGAATCCTATGTTCTATGACTTTGGC
genomic: TGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAGgtaattaatt ... ttttttacagTTCCTCTCTATGAAGCTTGCTTCTGTGAATCCTATGTTCTATGACTTTGGC