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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgccttgtggatatatgtatttccactgtcatcttaaatatccttattctaccttaccttttggtttctcatgttggacaatttttcattgattggattgggcag

Basic information

species Vitis vinifera
transcript Vv07s0130g00230.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0130g00230.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os02g35640.1 (Oryza sativa), 5'ss of exon 4
CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgccttgtggatatatgtatttccactgtcatcttaaatatccttattctaccttaccttttggtttctcatgttggacaatttttcattgattggattgggcag
 || ||| ||||| |   ||||||||||||  |||| || || |||||||| ||  ||||| ||||||| || ||||||||  |||| |||||||||| ||||||     || |  || ||   |  |  |   |  | ||   |||| |  ||| |  | |   | |  | |   |  | |  | |||||| ||| |  |          
TCCCAAAAGGCAATTTGACATGATGCTTGATTCTGTGCGGATATATGCAACTGCTGTATACATTGCAAGCATCATAATTGCTCTGTTCTGTGCTCTCTTTgtaagacaattt-taaattta-acaggtgtaaattagttttg--tatcatgcttcaatttaattgtataatatgctaaatggctctattttttatttacag----------

upper sequence: Vv07s0130g00230.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA16G33260.1 (Glycine max), 5'ss of exon 4
CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgccttgtggatatatgtatttccactgtcatcttaaatatccttattctaccttaccttttggtttctca-tgttggacaatttttcattgattggattgggcag
 || ||| ||||||| || ||||||||||||||||||||||| |||||||||||||||||| |||||||||| ||||| ||||||||||||||||| |||||||||     ||   ||   | | ||    || | || | ||| |  |  |    |||||  |||||  |  |||| | |   |  |||||  ||| |   |         
TCCTAAAAGGCAAGTTACAATGATGCTTGACCCTGTTCGTATATATGCAACAGCCATATACATTGCAAGTATGATAATCGCCTTGTTTTGTGCTCTTTATgtaagtcaaaatgc--atccgtcttttgttccttttat-tcaaaca--caaaaagaacctt-tcttttaatagctcaatatctcattattttgtattaagcag---------

upper sequence: Vv07s0130g00230.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G28470.2 (Glycine max), 5'ss of exon 4
------------------CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgccttgtggatatatgtatttccactgtcatcttaa-atatccttattctaccttaccttttggtttctcatgttggacaatttttcattgattggattgggcag
                   || ||| |||||||||| |||||||| || ||||  ||||| |||||||||||||||||| |||||||||| ||||| |||||||| |||||||| |||||||||     ||   || | | | ||    || | || | || | |     |  ||  ||||   ||| | |    || |   |  ||||| | || |   |         
CACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAAgtatgataatcgccttgttctgtgctctttatgtaagtaaaaatgc--atttgtcttttcttccttttatttaaacacaaatagagcctttcttaaaatttagctcactatctc--attattttgcgttaagcag---------

upper sequence: Vv07s0130g00230.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G28470.1 (Glycine max), 5'ss of exon 4
CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgccttgtggatatatgtatttccactgtcatcttaa-atatccttattctaccttaccttttggtttctcatgttggacaatttttcattgattggattgggcag
 || ||| |||||||||| |||||||| || ||||  ||||| |||||||||||||||||| |||||||||| ||||| |||||||| |||||||| |||||||||     ||   || | | | ||    || | || | || | |     |  ||  ||||   ||| | |    || |   |  ||||| | || |   |         
TCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAAGTATGATAATCGCCTTGTTCTGTGCTCTTTATgtaagtaaaaatgc--atttgtcttttcttccttttatttaaacacaaatagagcctttcttaaaatttagctcactatctc--attattttgcgttaagcag---------

upper sequence: Vv07s0130g00230.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G23550.1 (Arabidopsis thaliana), 5'ss of exon 4
CCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttg--ccttgtggatatatgtatttccactgtcatcttaaatatccttattctaccttaccttttggtt-tctcatgttggac-------aatttttcattgattggattgggcag
|||| | ||||| ||||| |||||||||||||| | |||||| || || || ||  | || || ||||| || || |||||||||||||||||||| ||||||||| |    |      |  |  || |         |  ||   |||  | | |  |   ||  |  ||    |  | ||||||||       ||| | ||||  ||     ||  |||
CCCACAGCGGCAGGTGACTATGATGCTTGACCCAGCTCGTATCTACGCTACTGCATTGTATCTAGCAAGCATTATCATTGCCTTGTTTTGTGCTCTTTATgtaagtggggtttctcaattcaaaatactggatgcacaacattgcttatgttcagttaaaactaggtagtgaaaatgccttgttggactaaatataatctgtcatc-atctttctgtacag

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|351049545|gb|FQ429167.1|FQ429167
EST:     CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTAT                         GTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
genomic: CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgcc ... gattgggcagGTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
EST: gi|110399003|gb|EC965487.1|EC965487
EST:     CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTAT                         GTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
genomic: CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgcc ... gattgggcagGTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
EST: gi|33402532|gb|CF208159.1|CF208159
EST:     CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTAT                         GTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
genomic: CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgcc ... gattgggcagGTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
EST: gi|33402509|gb|CF208136.1|CF208136
EST:     CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTAT                         GTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA
genomic: CAGCCATATACCTTGCAAGTATAATAATTGCCTTGTTTTGTGCTCTCTATgtaagttgcc ... gattgggcagGTTCGTAACAAGTTATTGACACTCTTGGCAATCATGTTAGAGTTTGGTGCA