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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcacataccccaagaagaaaaataaacttaatgatgcttttgcag

Basic information

species Vitis vinifera
transcript Vv16s0050g01180.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os02g45670.1 (Oryza sativa), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcacataccccaagaaga-----aaaataaacttaatgatgc-ttttgcag------------
 ||||| ||||||||||||||||| || || ||||||||||| ||||| |||||||||||   ||  ||| || |   |       |||  || ||||| ||     |||   |       |  ||| ||  | |      | ||||            
CTTTGATCGTGATTGGAAAAAGATAGAAGCTTTTGTTGGATCGAAGACTGTTATTCAGgtgggcaa-attataaatggaaaaggggatatcctctggcaaatgaataaagggaattgtggcatcaaatttcgtcacaaacctagcagaactgaatccct

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os06g01670.1 (Oryza sativa), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgta---atcaggattgtataattatccttttatagactatggcacataccccaagaagaaaaataaacttaatgatgcttttgcag----------------
 ||||| |||||||||||||||||||| |||| |||||| || ||||| || || ||||||    | |    | | | |   ||||| | |    | | |       |   ||  |          ||| |||   |||   ||                
GTTTGATCGTGATTGGAAAAAGATTGAAGCATATGTTGGCTCTAAGACTGTAATACAGgtatagtttatagctatctcaacttccttctttt--tttttgttttcttctttagttggttgcctttgttactgaatatttcagagttttacaatttttaaa

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G057408_T01 (Zea mays), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatcctt--ttatagact--atggcacataccccaagaagaaaaataaact---taatgatgcttttgcag-------------------------------
|||||| ||||||||||| || ||||| |||| |||||| |||||||| ||||| |||||||||   |       |  ||||||  |  |||     |  |  | | |       ||  | |   | |   |||| |    |||| |                                
TTTTGATCGTGATTGGAAGAAAATTGAAGCATATGTTGGCTCAAAGACTGTTATACAGgtaatccataaccacccaaaatccttaatggtagttctcaaagttcttgcgatcttcagttacaggcattcggtaataaatactttgtaatcattgtaaactttacaatgtcctttgatag

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G135052_T01 (Zea mays), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcac-ataccccaagaagaaaaataaacttaatgatgc--ttttgcag---------------
 ||||||||||| |||||||||||||| |||| |||||| || |||||||| || |||||       | | |    ||   |  | | |   | || |    |   ||           |   |||  | |  |  | ||  ||               
CTTTGACCGTGACTGGAAAAAGATTGAAGCATATGTTGGCTCCAAGACAGTAATACAGgtctagttaaatctgctcttcggcactca-aatttgtgccgttgttttcctgtttagttggttggctttgtcacacagtgttttaggctagttatggtttt

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G170148_T01 (Zea mays), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcaca-taccccaag----aagaaaaataaacttaatgatgcttttgcag--------------------------------------------------------
|||||| ||||||||||| |||||||| |||| ||| || || ||||| ||||| |||||||||   |    |   | |  | || | |     |  || | |||  |       |||  | |   | |   | ||| ||     |                                                        
TTTTGATCGTGATTGGAAGAAGATTGAAGCATATGTCGGCTCGAAGACTGTTATACAGgtaatccatagc-caccctaagtccttaacaatagttctcaaagtacttctgatcttaagctacaggcattcggtaatgattacttggtaatcaatctatgctgtataatgtccccaatctataaaaaaatgttcctttgacag

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA10G37520.1 (Glycine max), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcagga-------ttgtataattatccttttatagacta-----tggcacataccc-caagaagaaaaataaacttaatgatgctt-ttgcag---
 ||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||||    |        |||   |  ||  ||  ||   |||     |||          | | ||      |  | | ||| | || | ||  ||   
ATTTGACCGTGACTGGAAAAAGATTGAAGCATTTGTTGGATCAAAGACAGTTATCCAGgtaatttcaaatgcaatctgtgacaggatgtttacattagctagtttctgggttgggttagccataaatgttctggattgaattaggcatgttatagttt

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA20G30250.1 (Glycine max), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatc-------------aggattgtataattatcct-tttatagactatggcacataccccaagaagaaaaataaacttaatgatgctt-ttgcag---
 ||||||||||| |||||||||||||| ||||||||||||||||||||||| || ||||||||                || || ||| |||   | | | | |  | |||    ||  |||  ||      |  | | ||| | || | ||  ||   
ATTTGACCGTGACTGGAAAAAGATTGAAGCATTTGTTGGATCAAAGACAGTCATCCAGgtaatttcaaatgcaacctgtgactggatatttacattatctgttgtttctgggttgtaagccataaatgttc-tggattgaattaggcatgttatagttt

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA16G29740.1 (Glycine max), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcacataccc--caagaagaaaaataaacttaatgatgcttttgcag---------------
 ||||| |||||||||||||||||||| |||||||||||||||||||  ||||| ||||||||    |||| | ||  |  ||||  | | ||   |   | |     |   ||      | || || |   |   | ||||                
GTTTGATCGTGATTGGAAAAAGATTGAAGCATTTGTTGGATCAAAGAGTGTTATACAGgtaattctcattgaacaaaaaaactttctttgcctgaagtgtagaattatctttaatctttctcaatttgagtctagatctgcacctagaaagtatccat

upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA09G24400.1 (Glycine max), 5'ss of exon 2
TTTTGACCGTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcaggattgtataattatccttttatagactatggcaca----taccccaagaaga----aaaataaacttaatgatgcttttgcag---------
 ||||||||||| |||||||||||||| |||||||||||||||||||  ||||| ||||||||    |||| | ||  |  ||||  | | ||   |  ||    || |   || |      ||  |||   ||   ||    ||  ||         
GTTTGACCGTGACTGGAAAAAGATTGAAGCATTTGTTGGATCAAAGAGTGTTATACAGgtaattctaattgaacaaaaaaactttctttgcctgaagtgcagaattatctttagtatttctcaatttaagtctagatatttcattttagtctgctcct

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|351034613|gb|FQ457970.1|FQ457970
EST:     GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAG                         ATACGTAGTCATGCACAGAAGTACTTTCTGAAGGCTCAGAAGAATGGAATA
genomic: GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcagga ... gcttttgcagATACGTAGTCATGCACAGAAGTACTTTCTGAAGGTTCAGAAGAATGGAATA
EST: gi|351022507|gb|FQ447029.1|FQ447029
EST:     GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAG                         ATACGTAGTCATGCACAGAAGTACTTTCTGAAGGCTCAGAAGAATGGAATA
genomic: GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcagga ... gcttttgcagATACGTAGTCATGCACAGAAGTACTTTCTGAAGGTTCAGAAGAATGGAATA
EST: gi|349832942|gb|FQ423064.1|FQ423064
EST:     GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAG                         ATACGTAGTCATGCACAGAAGTACTTTCTGAAGGCTCAGAAGAATGGAATA
genomic: GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcagga ... gcttttgcagATACGTAGTCATGCACAGAAGTACTTTCTGAAGGTTCAGAAGAATGGAATA
EST: gi|351013330|gb|FQ425035.1|FQ425035
EST:     GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAG                         ATACGTAGTCATGCACAGAAGTACTTTCTGAAGGCTCAGAAGAATGGAATA
genomic: GTGATTGGAAAAAGATTGAGGCATTTGTTGGATCAAAGACAGTTATTCAGgtaatcagga ... gcttttgcagATACGTAGTCATGCACAGAAGTACTTTCTGAAGGTTCAGAAGAATGGAATA