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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTACTTAAACGCAAGAAACCATCGAACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatccttgccacttttattgggtttgtctatttatgttaataagtgatacttcgttagaatttgtactcaacctatcttttagcactattcattt...

Basic information

species Vitis vinifera
transcript Vv04s0044g01840.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01840.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA11G09370.1 (Glycine max), 5'ss of exon 9
GTTTACTTAAACGCAAGAAACCATCGA-ACCTT-----GAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatccttgccacttttattgggtttgtctatttatgttaataagtgatacttcgttagaatttgta-ctcaacctatctttta-gcactattcattt-------------------------------------------------------------------------------------------------
 | |||  ||||| ||||| |||||   |||||     ||  |||| ||||||||||||||||  ||| || ||||||||||||| |||||   |     || |||   | | ||  ||| | ||  |  ||  | |||  |||  | ||||| ||    |||  |  || |    ||   ||                                                                                                  
ATATACACAAACGAAAGAAGCCATCTTCACCTTACATGGATAATGCAGTCAAAGCTGCACGCAGTAAACCATCTAAACCACAgttaagatcg--gattgcttcattttctatctcgctttttcttg-tgtgttgtgcttacttaatacttgtagctttgtctagttaataagtgaaatgtgttgccaacctgttgctttggttgaaactagaaagtgtttactttgggactttggtttatccgctgacttgcttgcctttattgatttgtgtgggtgctag
















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|30131007|gb|CB916346.1|CB916346
EST:     GCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: GCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|110703600|gb|EE080590.1|EE080590
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|351041413|gb|FQ447540.1|FQ447540
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|110374828|gb|EC939763.1|EC939763
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|34363693|gb|CF405278.1|CF405278
EST:     GCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: GCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|352794399|gb|FQ481630.1|FQ481630
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|30302776|gb|CB979570.1|CB979570
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
EST: gi|110688872|gb|EE067920.1|EE067920
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCA
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCA
EST: gi|71880737|gb|DT029792.1|DT029792
EST:     AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACA                         ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT
genomic: AACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatcc ... tattggctagATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTACTTAAACGCAAGAAACCATCGAACCTTGAGCATGCTGTCAAAGCTGCACGCACCAAAGCAGCTAAACCACAgttgagatccttgccacttttattgggtttgtctatttatgttaataagtgatacttcgttagaatttgtactcaacctatcttttagcactattcattt

- - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT