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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaatcaccgatatggacacatatcttgttaattttgtctaggtcttgtgcatcat...

Basic information

species Vitis vinifera
transcript Vv09s0018g01840.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os03g27960.1 (Oryza sativa), 5'ss of exon 9
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaat-caccgatatggacacatatcttgttaattttgtctaggtcttgtgcatcat-------------
  |||| ||||| ||||| |||| ||||||||||||||||||||| || ||||| || ||||| |||||  | || || || |||||||||||||||||||| |||| |  ||  | |  |  |    |  || ||| |  |  |  || ||   | | |    | ||  ||  | || | ||  |  |  |     | |              
AATTGGCTGGATAATGGGCCAACAAATGGACTTGAATTTTCAACTGTTCGAGACAGCAACTCTTTTTATAACAGTACTGGTGGTGGCATTTATGTTGCAGgtgtgtt-tagagaacttattagcatcctctgtattgttcatactttatacaattacaagagatcttacttttatgatctagtgcacattctaattctgaataaatgtttccag

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G053004_T03 (Zea mays), 5'ss of exon 9
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttg-ttatcaagttcctcatttcccttttagttttggttttg---gtcaatcaccgatatggacacatatcttgttaattttgtctaggtcttgtgcat-cat----------------------
  |||| ||||| |||||||||  ||||||||||||||||||||| || ||||| || |||||||||||  | || ||||| |||||||| ||| | ||||| || |||   |      ||    ||| ||   |||   | ||    | ||    | | | || |   | | ||||    | | | ||| |||  ||  | |||                      
AATTGGCTGGATGATGGGACAAGAAATGGACTTGAATTTTCAACTGTTCGAGACAGCGACTCTCTTTATAACTGTACTAGTGGTGGCATTCATGCTACAGgtatgcttacagaacaaagcaacatcctattctattttcctctgtatatgaagttactacacgggc---tgttttgtagcctatttttagttctaatgttttcattttattatatatgtttttccag

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G143356_T02 (Zea mays), 5'ss of exon 11
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaatcaccgatatggacacatatcttgttaat-tttgtctaggtcttg-tgcatcat-----
| |||||||||  |||||||||   ||||||||||||||||| || |||||||| || |||||||| ||  | || || || |||||||||||||| |||||  ||| | ||| |      |      |||        |||  |  || ||   |||||       | ||| |||  ||| | | |  | || |  |         
TATTGGTTGGACGATGGGACAAAAGATGGACTTGAATTTTCAGCTATTTGAGACAGCAACTCTCTTCATAACAGTACTTGTGGTGGCATTTATGTTACAGgtaggttcttaaggtggatgata-----ttaagaaaaacttttat--ataacgtgtatggtgttgcctgttgctaaggtttatattgaccctgatttactgctgcca

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G040017_T01 (Zea mays), 5'ss of exon 10
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcc-----cttttagttttggttttggtcaatcaccgatatggacacatatcttgttaattttgtctaggtcttgtgcatcat
| |||||||||| |||||||||   ||||||||||||||||| || |||||||| || |||||||| ||  | ||||| || || ||||||||| | |||||  ||| | ||| |    |||        ||||||      || |  ||   |  ||  | |||  |  | | ||| |    |  | | |    ||   ||   
TATTGGTTGGATGATGGGACAAAGGATGGACTTGAATTTTCAGCTATTTGAGACAGCAACTCTCTTCATAACAGTGCTTGTGGTAGCATTTATGCTACAGgtaggttcttaaggtggatattaataaaaacttttataaaatgtgtctgttg-ttgcctgt-tggtaaggtttattgatgccatcatatggactgtgaaaat---

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G046480_T01 (Zea mays), 5'ss of exon 10
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttg-ttatcaagttcctcatttcccttttagtttt--ggttttggtcaatcaccgatatggacacatatcttgttaattttgtctaggtcttgtgcatcat
  |||| ||||| ||||| |    ||||||||||||||||||| | |||||||| || |||||||||||  | || ||||| |||||||| ||| | ||||| || ||    |      ||   ||||||  ||||    |  |   |  |   |  ||||      || ||  |                            
AATTGGCTGGATGATGGGGCGGGAAATGGACTTGAATTTTCAATTGTTTGAGACAGCGACTCTCTTTATAACTGTACTAGTGGTGGCATTCATGCTACAGgtatgcttgcagaacaaagcaacaccctttctgtttcacagcctattttgagttctaatattttacaatttccag----------------------------

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G143356_T01 (Zea mays), 5'ss of exon 11
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaatcaccgatatggacacatatcttgttaat-tttgtctaggtcttg-tgcatcat-----
                         ||||||||||||||||| || |||||||| || |||||||| ||  | || || || |||||||||||||| |||||  ||| | ||| |      |      |||        |||  |  || ||   |||||       | ||| |||  ||| | | |  | || |  |         
-------------------------ATGGACTTGAATTTTCAGCTATTTGAGACAGCAACTCTCTTCATAACAGTACTTGTGGTGGCATTTATGTTACAGgtaggttcttaaggtggatgata-----ttaagaaaaacttttat--ataacgtgtatggtgttgcctgttgctaaggtttatattgaccctgatttactgctgcca

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA13G44960.1 (Glycine max), 5'ss of exon 9
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaatcaccgatatggac---acatatcttgttaattttgtctaggtcttgt-gcatcat
|||||| |||   |||||| ||  ||||||||||||||||||||| || ||||||||||| || |||||| | ||| ||||||| ||||||||| ||||||| ||||||    ||| |  || | | | ||  ||  |||     || | |   || |       |||||     |  ||  |    | || | ||   | |||
TGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAGTTGCATTTATGATGCAGgtatgttat----ttcttacttgcgcctgtaaattgtgttggtagcagttattaatgttttttcaacataaacaatcgatggtcgagatgtttggtcaaagcat

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA15G00380.2 (Glycine max), 5'ss of exon 9
TGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatcaagttcctcatttcccttttagttttggttttggtcaatcaccgatatggacacatatcttgttaatttt----gtctaggtcttgtgcatcat
|||||| |||   |||||| ||  ||||||||| ||||||||||| |||||||||||||| || |||||| | ||| ||||||| ||||||||| ||||||| ||||||    ||| |           | || |||||    || | | |    | |  ||  |||     | |||  |      |||| |||  |  |  ||
TGTTGGATGGTGCATGGGAAAAGAAATGGACTTAAATTTTCAACTATTTGAGACTGCCACACTTTTTATCACTGTGTTAGTAGTTGCATTTATGATGCAGgtatgttat----ttcttgcccctataaatggtgttggtagcagttattaatgtttttcaacttataaacaatcaatggtcagaagctagttctcttttaagat

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|351057010|gb|FQ448527.1|FQ448527
EST:     AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAG                         GAAGGGACATCAAACTATTTTTAAAGGTTTGATGCTTATTCTATGCTATCT
genomic: AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatc ... gtatttgcagGAAGGGACATCAAACTATTTT-AAAGGTTTGATGCTTATTCTATGCTATCT
EST: gi|349830905|gb|FQ418189.1|FQ418189
EST:     AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAG                         GAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC
genomic: AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatc ... gtatttgcagGAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC
EST: gi|351033483|gb|FQ462134.1|FQ462134
EST:     AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAG                         GAAGGGACATCAAACTATTTTTAAAGGTTTGATGCTTATTCTATGCTATCT
genomic: AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatc ... gtatttgcagGAAGGGACATCAAACTATTTT-AAAGGTTTGATGCTTATTCTATGCTATCT
EST: gi|349830995|gb|FQ418279.1|FQ418279
EST:     AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAG                         GAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC
genomic: AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatc ... gtatttgcagGAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC
EST: gi|77581344|gb|DV219604.1|DV219604
EST:     AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAG                         GAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC
genomic: AGACTGCCACTCTCTTTATCGCGGTGCTAGTAGTGGCATTTATGTTGCAGgtttgttatc ... gtatttgcagGAAGGGACATCAAACTATTTTAAAGGTTTGATGCTTATTCTATGCTATCTC