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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctcttagaagttttatacacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt...

Basic information

species Vitis vinifera
transcript Vv11s0016g04180.t01
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 13
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtat-ctcttagaagttttatacacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt----
  ||||| ||||||||||||||||||||||| |||||||| || |||||||| ||||||||  |||||||  |  | ||| ||||  |  |    |||||||||  || || ||||   |   |  | || ||||  | | | ||        || || |||     |       |  | | | ||  |    | || | |    
CCAAAGCAGCAGAATCATTGGCAGATCCTGACGAGTACCCAAACTTGTTTGAAGACTGGCAAATTGCTCTCAATGTAGAAGCTAATGTCGCGCCCAAAAGgtatgttcgtaaaagtaaaaactatgttct-tttgtgaaagttttacc---agttctctcttccatgcatgggacaagtcg-tcaaggtttgctttcctcttctc

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctct-tagaagttttatacacatcctatt-tgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt
  ||||| ||||||||||||||||||||  | |||||||| || |||||||| ||||||||  |||||||  |  | ||| ||||  || |    ||||||| | | | || ||||   |   |  | || || ||| ||  |    |  |   | ||||     |    |      |  || ||    | |    ||    
CCAAAGCGGCAGAATCATTGGCAGATCCCAACGAGTACCCAAACTTGTTTGAAGACTGGCAAATTGCTCTCAATGTAGAAGCTAATGTTGCGCCCAAAAGgtctgtttgtaaaagtaaaaactatgttcttttgtgaaagttttacctgttctctcttccacacatgggacaagccgtcatggtttgctttcctcttctc--

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATT-----TCAGAGAAAAGgtatctcttagaag-----ttttatacacatcctatttgatag-actattgttcttgattttccctttttaactctcattatattgcttaat-atacaatctcatgt-----
 |||||||||||| ||  |||||||||||   ||||| || ||||| ||||| |||||||||||||| |||    | |||   ||  ||     || |||  ||    |  |  |||||     |||| ||    | | || | |    || | |  | |||       || ||  |    ||  |  | |   ||| |||   |||| |       
CAAAAGCTGCAGAGTCTCTGGCAGATCCTTCTGAGTATCCAAATTTATTTGAAGACTGGCAGGTTGCACTTACTGTAGAAAAGAATGTTGCTTCTCGGAGgtaaaaattaccagagaagctgctttttttattattaccatgtaacgctaccaattcttttggaagaaactattgtataaacaa-acctggtacaatgataaggtctctttcttcag

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 23
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctcttagaagttttatacacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatata-caatctcatgt---
  ||||||||||||||  ||||||||||||  |||||||| ||  |||| |||||||||||| |||||||  |  | ||| |||   || |    || |||||| | ||||    |   ||   ||  |||     | |  | | |       |||   | |    || | |||  |     ||||  | |||| |  ||    
CCAAAGCTGCAGAATCTCTGGCAGATCCTGCTGAGTACCCAAACCTGTTCGAGGACTGGCAGATTGCTCTGAATGTAGAAGCTACTGTTGCTCCCAAGAGgtatgtgttag----tccttatggattatatagctcaaataaatttgtcaagcttttagtatccttctatgatttaaacaagtaatgcatcaattttgtgcatt

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 21
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctcttagaagttttatacacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt
 |||||||||||| ||  |||||||||||   || || || ||||| ||||| |||||||||||||||||     | |||   |   || |     | |||||    |||  |     |     ||  | | |  |||| ||||| |    |    |       ||    ||||  ||  |  ||  | |    |  |  
CAAAAGCTGCAGAGTCTCTGGCAGATCCTTCTGAATATCCAAATTTATTTGAAGACTGGCAGGTTGCTCTAACTGTAGAAAAAAGCGTTGCTTCTCAGAGgtacacattatcacacgaactactatgttttgttctagaatattgcttaccagaagcaaaaaaaaaaaaacattgaatcacagaaactgcttattggtcc

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgt-atctcttagaa-----gttttat-acacatcctatttgatagactattgttc-ttgattttccctttttaactctcattatattgcttaatatacaatctcatgt---
 ||||||||| ||||||||||| ||||||||||| || || ||||||||||| || ||||||||||| || |   | |||||||||  |   || | ||||| |   |  ||||      ||||||  || ||  ||||  |  |  ||| |||  | ||||     |||||      ||  | ||   | | | |    | | ||     
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatata-tattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctcttagaag--------ttttatacacatccta----tttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt----------------
 |||||| || ||||||||||| |||||||| ||||| |||||||||||||| || ||||| ||||| ||||   |||||||||||  | |||| | |||||   |     ||         | ||  |   ||| |     |||||||   ||| ||  | |  |||    |  |||  ||| | |   |   |  | ||| | || || |                
CAAAAGCCGCCGAATCATTGGCTGATCCTGAGGAGTATCCTAATTTGTTTGATGATTGGCAAGTTGCACTTGCTGTTGAATCTAAAGCTACAGAAACAAGgtcagtggggaaatgcatactttctttcaagtatcttgcaactttgataatttat-gtagtagtgttttgtgtgctaaacctcttcaacatatgttctttactaacttattttgtttgtttattatag

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgta-----------------tctcttagaagttttatacacatcc--tatttgatagactattgttcttgattttccctttttaactctcatta-tattgcttaatatacaatctcatgt-----------
 ||||||||| ||||||||||| |||||||| || || |||||||||||||| || ||||| ||||| || |   |||||||||||  | | ||   |||||                  | ||||| |||| |  | ||  |    || || ||    || |||| |   |  |  ||     |||   |  | | ||  ||| ||    || |  | |           
CAAAAGCTGCTGAATCATTGGCTGATCCTGAGGAATATCCTAATTTGTTTGATGATTGGCAAGTTGCACTAGCTGTTGAATCTAAAGCTACGGAAGCAAGgtcagtggggaaatgtgtactttcttacaagtatcttgcaactttggtaatttatgttgtagtgttttgtgtgctagctaaaccacttcaacaaatgttctttactaacttattttgtttgtttattacag

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctct------tagaagttttat---acacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt---
 ||||||||| |||||||||||  |||||||||| || || ||||||||||| || ||||| ||||| || |   | |||||||||  |   || | |||||   |        |  || ||||||   |   ||| |      ||||   ||  |   ||||     |||||      ||  | ||   | | ||| |  | | ||     
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagta--gattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: AT3G15980.1 (Arabidopsis thaliana), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctcttagaagttttatacacatcctatttg-atagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt----
 |||||| || ||||| || || ||||||||||||||| | ||| | |||||||| ||||| |||||||||    ||||| | || | | |||||| ||||||||     ||    ||||   | | ||||| | ||      |   |  |  || |  ||||  |||| |  ||  ||   |  ||||  |     || |    
CAAAAGCAGCTGAATCTTTAGCTGATCCTGAAGAGTACTCAAATCTTTTTGAGGATTGGCAAGTTGCTCTTTCTGTTGAAGCGAACACTGCAGAGACAAGgtatcc----gagcacttattttc-tgctattcgcatttttcttccatggtcgttatggctttcgaactgtagttcaataattatatatgtacctagatatgatt

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 5'ss of exon 22
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATT-----TCAGAGAAAAGgta--tctcttagaagttttatacacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt----------------------------------------------------------------------
|||| ||||||||||| ||||||||||| ||||| ||||| || ||||||   |||||| |   |||  | |  | |||  | || ||      || |||  |||| |  ||| || | || || |      |  | || ||     |     | |||| | | |   |         | | ||| | | |  ||  |  ||                                                                           
AAAAGGCTGCAGAATCTTTGGCAGATCCAGAAGAATACCCCAACTTGTTTTCAGACTGGGAATCTGCGTTAGCTACTGAGGCCAAGATGAAAGATCTGAGgtaaggaagttctgtttgtagcttgagc----tgttgttcgaagtggtggccgtattgaatctgctgctcacgtggatactgtatggttcagcatttacacttgctgactaggattttgaggcaacagaatatgttctaaaatcgtattattgtgtaattggctattggtgacatag

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|51050897|gb|CO818784.1|CO818784
EST:     GAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAG                         GGGTACTTATCCTCCTGCTGAACATTATTTGAACTATGCTGAGAGATCAAA
genomic: GAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctctta ... tctcctgtagGGGTACTTATCCTCCTGCTGAACATTATTTGAACTATGCTGAGAGATCAAA