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

CTGCAAATCCCCCTCATTTCATCCACTTGTGTTACAAGCCTCTAACTGGACCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgtattttcagaaaataagagttttttttctggttcagttatttgacatagagagaaacaagtgttttttttcggactggctattgtttttgg...

Basic information

species Vitis vinifera
transcript Vv11s0037g00180.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0037g00180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA02G36530.1 (Glycine max), 5'ss of exon 4
CTGCAAATCCCCCTCATTTCATCCACTTGTGTTACAAGCCTCTAACTGGACCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgtattttcagaaaataagagttttttttctggttcagttatttgacatagagagaaacaagtgttttttt--tcggactggctattgtttttgg
| || ||||| |||||||| |||||  | |||||||| ||||| | |||||||||||| | |||  ||| ||| ||||| ||||| |||||||||||||||| | |  ||    | |   | | | |  |   ||   |  | |   || ||| || |       | ||||| || |   | |   ||  | ||| | ||  
CGGCTAATCCTCCTCATTTTATCCATCTATGTTACAAACCTCTGAGTGGACCTGTCAATGTCAAGTTGGCATTAGTTGGAAAAGGTTTGACTTTTGACAGgtaaataggtgacct-atttatttataactcaattagagagtgatcaatctgaaatgggatttccctagtgtgttatccatggttttgatttttggtgtta-

upper sequence: Vv11s0037g00180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA16G19350.1 (Glycine max), 5'ss of exon 4
CTGCAAATCCCCCTCATTTCATCCACTTGTGTTACAAGCCTCTAACTGGACCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgtattttcagaaaataagagttttttttctggttcagttatttgacatagagagaaacaagtgt-tttttttcggactggctattgtttttgg
| | |||||| |||||||| |||||  | |||||||| ||||| | |||||||||||| | |||  |||  || ||||| ||||| |||||||||||||||| | |  ||    | |   |   | |  |   ||   |  | |   || |||  | |       | ||||| || |    ||  | | | || | | |  
CGGAAAATCCTCCTCATTTTATCCATCTATGTTACAAACCTCTGAGTGGACCTGTCAATGTCAAGTTGGCTTTAGTTGGCAAAGGTTTGACTTTTGACAGgtaaataggtgacct-atttatctataactcaattagagagtgatcaatctgaagtgggatttccctagtgtgttatccatggttttgattttttgtatta
















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|349820186|gb|FQ406862.1|FQ406862
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAAGATTGACTTTTGACAG                         TGGTGGCTACA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACA
EST: gi|110703717|gb|EE080805.1|EE080805
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|351027495|gb|FQ444744.1|FQ444744
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGCCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|294964918|gb|GW838721.1|GW838721
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTAT
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTAT
EST: gi|110391662|gb|EC956652.1|EC956652
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|110407927|gb|EC973545.1|EC973545
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|161706463|gb|FC056783.1|FC056783
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|30253256|gb|CB970807.1|CB970807
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|110719313|gb|EE097146.1|EE097146
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|71885860|gb|DT034915.1|DT034915
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|352795635|gb|FQ480223.1|FQ480223
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATC
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATC
EST: gi|71863824|gb|DT012879.1|DT012879
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGGTTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|71884348|gb|DT033403.1|DT033403
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|110719195|gb|EE096892.1|EE096892
EST:     CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: CCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
EST: gi|110368156|gb|EC932124.1|EC932124
EST:     AAAGGATTGACTTTTGACAG                         TGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA
genomic: AAAGGATTGACTTTTGACAGgtgattgtgt ... atggttttagTGGTGGCTACAACATCAAGACTGGACCTGGCTGTTCTATTGAGCTCATGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCAAATCCCCCTCATTTCATCCACTTGTGTTACAAGCCTCTAACTGGACCTGTCAAGGCCAAACTGGGATTGGTTGGTAAAGGATTGACTTTTGACAGgtgattgtgtattttcagaaaataagagttttttttctggttcagttatttgacatagagagaaacaagtgttttttttcggactggctattgtttttgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacaa