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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttcttttatcatttttttttctataatagtcttctgctggctctttttgtatggatttggaagtggaatgttagggttttgtagctctgtcct...

Basic information

species Vitis vinifera
transcript Vv06s0004g06860.t01
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttcttttatcattttttttt-ctataatagtcttctgct---ggctctttttgtatggatttggaagtggaatgttagggttttgtagctctgtcct
 || |||||  | ||||||||||||||||| |||||||| ||||||||||| ||||| || ||  | || || |||||||| ||||| || ||  | |||||  |  | |       |  | ||    ||| || |   ||| |     | || || || | | |||||        |   ||    || | |||         
GGCTAACAGTGCTAAAACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCCGAGGAGTTCCGGCTAGCACAAATATGTGGTCTCAATATTATTGTCCAGgtatatatacaggagcaacctgttagaactaaaacatatttcagtacaagtcttttcttatctagattttttctaacaccctttt--ttgtatag---------

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttcttttatcattttttttt-ctataatagtcttctgct---ggctctttttgtatggatttggaagtggaatgttagggttttgtagctctgtcct
 || |||||  | ||||||||||||||||| |||||||| ||||||||||| ||||| || ||  | || || |||||||| ||||| || ||  | |||||  |  | |       |  | ||    ||| || |   ||| |     | || || || | | |||||        |   ||    || | |||         
GGCTAACAGTGCTAAAACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCCGAGGAGTTCCGGCTAGCACAAATATGTGGTCTCAATATTATTGTCCAGgtatatatacaggaccaacctgttagaactaaaacatatttcagtacaagtcttttcttatctagattttttctaacacccttttttttgtatag---------

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggagg--ttcttttatcatttttttttctataatagtcttctgctggctctttttgt-atggatttggaagtggaatgttagggttttgtagctctgtcct
||| ||||| ||||||||||||||||||||||| ||||| |||||||||||||||||||| || ||||||||||| ||||| |||||  ||||||| |||||||     || || ||  || |||| |  | |   | | || | |||    |    || |    |     | |  ||| ||     | |  |  | |     
AGCAAACAGTTCAAAAACATGGAAGGAAGTTTGTTTTGCTTGTGTTGATGCTGAGGAATTCCGATTGGCTCAGATTTGTGGTCTCAATGTCATCATTCAGgtggcattctttttctagaatattttatcatttttcatttttatcctgataatcccagttacccctgcctcactcaaattttcaa--tatagaaatttacta-

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 22
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttctttt-----atcatttttttttctataatagtcttctgctggctctttttgtatggattt----ggaagtggaatgttagggttttgtagctctgtcct
||| ||||| ||||||||||||||||||||||| |||||||||||||||||||||||||| || ||||||||||| ||||| || ||  ||||||| |||||||   |  ||||     |  ||||||   | | ||    | | ||| |    |  ||      |  |       |  | |||| | |   |||  ||          
AGCAAACAGTTCAAAAACATGGAAGGAAGTTTGTTTTGCCTGTGTTGATGCTGAGGAATTCCGATTGGCTCAGATTTGTGGTCTTAATGTCATCATTCAGgtggcattcttttttctagaatatttttacatttttatctttatcctgataatccagttacccctgcctccctcaaattttgaatataaaaatttactaa---------

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtgg-aggttcttttatcatttttttttctataatagtcttctgctggctctttttgtatggatttggaagtggaatgttagggttttgtagctctgtcct--
||| ||||| ||||||||||||||||||||||| || ||||||||||||||||||||||| ||||| |||||||| ||||| |||||  ||||||| ||||||  |   | || ||   | | ||||   ||       || | |  ||      ||  ||              |    |    ||  ||     |||||  
AGCAAACAGTTCAAAAACATGGAAGGAAGTTTGTTTCGCCTGTGTTGATGCTGAGGAATTCCGCTTAGCTCAGATTTGTGGTCTCAATGTCATCATTCAGgtgataccattttctactttatattttaacatgtggaatttgtacatgcaaggaatgattgcccccctcctc---actccaaaaattactacacaagtcctcc

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtgg-aggttcttttatcatttttttttctataatagtcttctgctggctctttttgt-atggatttggaagtggaatgttagggttttgtagctctgtcct-
||| || || ||||||||||||||||||||||| || |||||||| |||||||||||||| ||||| |||||||| ||||| |||||  ||||||| ||||||  |   | || ||   | | ||||   ||       || | || ||     |  |       |    | |  ||  |||    |    |  |||  ||  
AGCAAATAGTTCAAAAACATGGAAGGAAGTTTGTTTCGCCTGTGTCGATGCTGAGGAATTCCGCTTAGCTCAGATTTGTGGTCTCAATGTCATCATTCAGgtgacaccattttctagtttatattttaacatgtggaatttgtacttgcaggaatgattgccccctcctcactccaaaatta---ctacacaaatcttcccat

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: PP1S270_53V6.1 (Physcomitrella patens), 5'ss of exon 25
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttcttttatcatttttttttctataatagtcttctgctggctctttttgtat---ggatttggaagtggaatgttagggttttgtagctctgtcct------------------------
||| || ||||| |||||||||| ||||||||| ||||| || || ||| | ||||||||||| |||||||| || ||||| || || ||||| || |||||   || |   | | |||  | | |  || |  | |     | ||   | |  | | |   ||||    |    |  |  |    ||||| |  |   |                           
AGCAAATAGCTCTAAAACATGGAGGGAAGTTTGTTTTGCTTGCGTGGATACCGAGGAATTTCGGTTGGCTCAAATTTGTGGCCTTAAGATCATTATTCAGgtattggcttagtcaacataatgtatcatacagaatttaatggatgaaacctgatatcttcaggatcaacaccatgcctagttcatttttgaatttgaatgaaatgggctttttgtggctgtggaag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 24
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 5'ss of exon 24
AGCCAACAGCTCAAAAACATGGAAGGAAGTTTGCTTTGCCTGTGTTGATGCTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttcttttatcatttttttttctataatagtcttctgctggctctttttgtatggatttggaagtggaatgttagggttttgtagctctgtcct-
 ||||| | ||||   || ||||||||||| || || || ||||||||||||||||||||||| || || || || || || || ||  ||||  | ||||||    |  | || |         |  || |  | |  |  | || ||   |||     | | || |||  ||| |  |   | |  |     |   || 
GGCCAATAACTCACGGACTTGGAAGGAAGTGTGTTTCGCTTGTGTTGATGCTGAGGAATTTCGATTAGCGCAAATCTGCGGTCTTAATGTCATTGTCCAGgtgattttattatttttcaaccaagtcttagatgattacttagttgactacctttaatcagctgtgtaaggagaa-gaaaaaatctgatgcaagttatctg

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|161712003|gb|FC060856.1|FC060856
EST:     CTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAG                         GTGGATGATTTGGAAGAAGTCAGTGACTATTACCAGAACAGGGGATGCTTT
genomic: CTGAGGAATTTCGCTTGGCTCAGATATGTGGGCTCAACATCATCATACAGgtggaggttc ... atgattctagGTGGATGATTTGGAAGAAGTCAGTGACTATTACCAGAACAGGGGATGCTTT