Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttgattatatttctaccaacttcttggaggtctcagaatgttgttgatcaatagcatatatgagttgatcttctgcattctagatcgatagttc...

Basic information

species Vitis vinifera
transcript Vv12s0028g02180.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 8
AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttgattatatttctaccaacttcttggaggtctcagaatgttgttgatcaat--agcatatatgagttgatcttctgcattctagatcgatagttc------------------------------------
|||||||||||| ||  | ||||||||||||||  | || || |||||||| || ||||| |||||||||||||| |||||||| || ||||||||||| || |||    || | ||||| |  | |  |  ||  |   | | |     | ||  ||  |    |  |   |  |  || | ||||  ||    |   ||                                     
AGAATGGCGTGCTCTGCTTGATGAGATGGCTGTGGTGGCTACAAAGGAATACCGGTCCATCGTCTTCCAGGAACCACGCTTTGTCGAGTATTTCCGCCTTgtgagt---gttttgtttcttcataatcatcagacttggaacatttcatataatgcatttaaggcacttagctaaacattgttcatttcaggcaaaacctttgtaaattaattttctttacatttttcatgaaatcag

upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 10
AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttgattatatttctaccaacttcttggaggtctcagaatgttgttgatcaatagcatatatgagttga---tcttctgcattct--agatcgatagttc---
||||||||||||  | |||||||| ||||| |   |||| || || ||||| || |||||||||||||| ||  | || |||||||||||||||||||| ||||||   ||| | ||| ||  ||||||      || |  |  |  || | || || |   | |     || |   | || |||  |||  | || | ||  |    
AGAATGGCGTGCTTTGATGGATGAAATGGCCGCTGTTGCTACAAAAGAATACCGGTCCATTGTCTTCCAAGAGGCACGATTTGTTGAATATTTCCGCCTTgtaagt---attctttttttaataacttc-----agtttttgttttatgcttataaaaatactgttcattttaaaccttttatgctgtcttgaaatagctatcttgaa

upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 8
AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttgattatatttctaccaacttcttggaggtctcagaatgttgttgatcaatagcatatat---gagttgatcttctgcattctagatcgatagttc
||||||||| || ||  | ||||||||||||||  | || |||||||| ||||| ||| | || ||||| || || |||||||| || ||||||||||| ||||||    |      | || || ||||         ||||| |  |    | |  ||  ||| ||    |  |||     |  | |  | |   ||  |  
AGAATGGCGAGCTCTTCTTGATGAGATGGCTGTGGTGGCAACCAAGGAGTATCGATCCGTAGTGTTCCAAGAGCCACGCTTTGTGGAGTATTTCCGCCTTgtaagtcctttctcccatttatcatcttcaattcttcatcagactagtaa-aacctctaaaatagattgaaaagtgaaaacttaaacttaaaagtaattat--

upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 8
AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttgattatatttctaccaacttcttggaggtctcagaa--tgttgttgatcaatagcatatatgagttgatcttctgcattctagatcgatagttc
||||||||||||  | ||||||||||||||| || | ||||| |||||||| || || || || ||  ||||||| |||||||||||||| |||||||| |||||| |     | | | | |     | ||     |   |||     |   |  ||  ||   | | || |   ||   |   ||   || | | | ||  
AGAATGGCGTGCTTTGATGGATGAGATGGCTATCGTCGCCACAAAGGAATACCGGTCAATCGTATTTGAGGAACCGCGCTTTGTTGAATACTTCCGCCTTgtaagtgttcacttttctttgctcgtgttttctcttttctagacaccttcacttgtctttatattgtttgtgc-aattaccactatgagagcttggttgta-

upper sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G473001_T01 (Zea mays), 5'ss of exon 8
AGAATGGCGTGCACTCATGGATGAGATGGCTGTCATTGCCACCAAGGAATATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagt--ttgattatatttctaccaacttcttggaggtctcagaatgttgttgatcaatagcatatatgagttgatcttc-tgcattctagatcgatagttc
||||||||| || ||  | ||||||||||| ||  | || ||  |||||||||| |||||||||||| | || || |||||||| || ||||||||||| ||||||  |||||   ||   |  | |       |     | | ||  | |  |   |  || |     |  |  | ||   ||   ||||||  |||| |  
AGAATGGCGAGCCCTTCTTGATGAGATGGCAGTTGTGGCAACTGAGGAATATCGGTCCATTGTCTTCAAAGAGCCACGCTTTGTCGAGTATTTCCGCCTTgtaagtccttgatcccatcgattgccatactacagtaacataaaaagatgggggtagaccagtactggaggctccacctgagtggtgtctaga--gatacta-

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|110690611|gb|EE067864.1|EE067864
EST:     ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|110378389|gb|EC943519.1|EC943519
EST:     TATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: TATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|110366969|gb|EC930889.1|EC930889
EST:     ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|110419647|gb|EC985893.1|EC985893
EST:     TATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: TATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|352765184|gb|FQ465881.1|FQ465881
EST:     ATCGTTCCATTGTCTTCCAGGAACCTCGCTTTGTTGAATATTTCCGCCTG                         GCAACTCCAGAATTGGAGTATGGCCGGATGAACATTGGA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGA
EST: gi|22009484|gb|BQ794518.1|BQ794518
EST:     ATCG-TCCATTGTC-TCCAGGAA-CCCGC-TTGTTGAATA-TTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|352772670|gb|FQ472145.1|FQ472145
EST:     ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|110417555|gb|EC983621.1|EC983621
EST:     ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: ATCGTTCCATTGTCTTCCAGGAACCCCGCTTTGTTGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
EST: gi|110731837|gb|EE106600.1|EE106600
EST:     TGAATATTTCCGCCTG                         GCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA
genomic: TGAATATTTCCGCCTGgtaagtttga ... ttaaatgcagGCAACTCCAGAGTTGGAGTATGGCCGGATGAACATTGGAAGTCGTCCATCA