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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGCATCCTTGTTCAAAGGGCCAGTTCCTCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGACTCCATTTCgtatcctgcatttttatcagaaggtgtccatttctttaataaattgaaattggtatgctggacatacccttggaagttttaggtgatcttttactgagaaaataattttttcctggatccatgtcaaagtaatctttaacacccttcag

Basic information

species Vitis vinifera
transcript Vv06s0004g02410.t01
intron # 9
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA12G02270.1 (Glycine max), 5'ss of exon 9
GCTGCATCCTTGTTCAAAGGGCCAGTTCCTCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGACTCCATTTCgtatcctgcatttttatcagaaggtgtccatttctttaataaattgaaattggtatgctggacatacccttggaagttttaggtgatcttttactgagaaaataattttttcctggatccatgtcaaagtaatctttaacacccttcag
|| || ||  |||||||||||||||| |||||| | ||||| |||||||| || ||||| || |||||||| || ||  ||||||| ||   |   |  |   |||  |||   |||    |||  |||   | |  |  |  |    ||||||| |  |  | | | |                                                           
GCAGCTTCAATGTTCAAAGGGCCAGTGCCTCCTATTGTCCCCTTTTCTTTAGGGTCTCTTGGCTTTATGACCCCTTTCTgtatcctccaacctgtgctca---tgtatattatcttat---attataat--atctatttcatttctaattggaagctgaacttaaccatccttcag----------------------------------------------------

upper sequence: Vv06s0004g02410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S77_287V6.1 (Physcomitrella patens), 5'ss of exon 9
GCTGCATCCTTGTTCAAAGGGCCAGTTCCTCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGACTCCATTTCgtatcctgcatttttatcagaaggtgtccatttctttaataaattgaaattggtatgctggacatacccttggaagttttaggtg-atcttttactgagaaaataattttttcctggatccatgtcaaagtaatctttaacacccttcag
|| ||     |||| || || || || || ||||| ||  |||||||  ||||||| || ||||||||||| ||||| ||||||||||||||||          ||  || |  | ||             ||   || || |||   | |    |||||      |||||| ||   ||      || |||   |  ||| |                          
GCAGCGAGTATGTTTAAGGGTCCTGTGCCCCCTGTCGTGTCTTTTTCCATGGGCTCCCTTGGTTTTATGACCCCATTCCgtatcctgcatttttta--------gtttatcttctgaa------------agttccctagatatatattggatgattttatacccgtctttttctctaaag-----ttgttctctgtgccacga-------------------------

upper sequence: Vv06s0004g02410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S57_138V6.1 (Physcomitrella patens), 5'ss of exon 10
GCTGCATCCTTGTTCAAAGGGCCAGTTCCTCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGACTCCATTTCgtatcctgcatttttatcagaaggtgtccattt---ctttaataaat-tgaaattggtatgctggacatacccttggaagttttaggtgatcttttactgagaaaataattttttcctggatccatgtcaaagtaatctttaacacccttcag
|||||     ||||||| || || || |||||||| ||  |||| ||| |||||||||| ||||||||||| ||||||||||||||   || | |    |   |   | |||   | || |||  | ||| |||| | ||    ||   |  ||     | ||||  |||  | | |     |                                                 
GCTGCGAATATGTTCAAGGGTCCCGTGCCTCCTGTCGTATCTTTCTCTATGGGCTCTCTTGGTTTTATGACACCATTTCgtatcctattttataaaactagttttctcgttttgtccttgatagctgtgagattgttttgtgccactgtctttt-----tcttagcagatgctatgcgttccac------------------------------------------------

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|33405099|gb|CF210726.1|CF210726
EST:     TCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGGCTCCATTTC                         ATTCTGAACAGTACAGAGAATGCCTTGATTCGATCCTAAGGGGTCCTTTTA
genomic: TCCTGTAGTCCCTTTTTCTTTGGGCTCTCTGGGTTTTATGACTCCATTTCgtatcctgca ... cacccttcagATTCTGAACAGTACAGAGAATGCCTTGATTCGATCCTAAGGGGTCCTTTTA