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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta...

Basic information

species Vitis vinifera
transcript Vv18s0001g15090.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g15090.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA14G26690.1 (Glycine max), 5'ss of exon 4
AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta------------------------------------------------------------------------------------------
||| ||||||||||||||||| ||||||||||||||||||||| | |||||||||||||||||||||||||||||||| ||||| ||||||||||||||||||  |  || |   | |||| |||   ||||  |||  | ||    |    |||  | |     |||  | || ||   ||     |    || | | |                                                                                          
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGATTGCATCAAGATGCTTGTTGGAAACAAAGTTGATAAGgtacgtcattgatgaatttgccttgtataattcctctt-tctaacaaatagtgagggtaagtctcaatt-cactaattccattagaaatttgcaagggaatgttttttcaaatgctgctcttgtgagctgtcatattttaaagtagacatgaatggaagtatacctcatcctaataatctcatatttcag

upper sequence: Vv18s0001g15090.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G09260.1 (Glycine max), 5'ss of exon 4
AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta--
||| ||||||||||||||||| ||||||||||||||||||||| | ||||||||||||||||| |||||||||||||| || || ||||||||||||||||||  |   |||   | |||  |||   ||||  |||  | ||    |    |||    ||     |   | || ||    |  |  |    || | | |  
AACCTTTACAAATCTATCTGATATATGGGCTAAAGAAATTGACTTATACTCAACAAATCAAGACTGCATCAAGATGCTTGTAGGAAACAAAGTTGATAAGgtacgt-cattaatgatttggcttgtataattcctctt-tctaacaaatagtgaggggtaagtctcaattcactaattcagttaaaaatttgcatgggaata
















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|110361230|gb|EC924688.1|EC924688
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|32246016|gb|CD711835.1|CD711835
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|32245511|gb|CD711330.1|CD711330
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|30136832|gb|CB922170.1|CB922170
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|110731009|gb|EE108741.1|EE108741
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|110724343|gb|EE100090.1|EE100090
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|229418793|gb|GO653030.1|GO653030
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
EST: gi|110394327|gb|EC959107.1|EC959107
EST:     CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAG                         GAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA
genomic: CAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattt ... ctttcttcagGAAAGTGAGAGGGTTGTCACCAAAAAAGAGGGAATCGACTTTGCTAGAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACATTTACAAATCTATCTGACATATGGGCTAAAGAAATTGACCTGTACTCAACAAATCAAGATTGCATCAAGATGCTCGTTGGCAACAAAGTTGATAAGgtatatattttagatacttgcattgagaaatttttctcatttattttaccaagagcatgaaaggaaatggctcttatcagatgcagcacaaacacgagta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcacaaa