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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgcgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt...

Basic information

species Vitis vinifera
transcript Vv16s0013g02020.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttctt-acatttgattgcg---attttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatg-atgttcgtttgtgt
 ||| |||||||||||||  | ||||| ||  | || ||  ||  ||| |||||||| || ||||| ||||| |||||| | |||||||||||||||||||||| |     |  ||   |  ||   ||| |       || ||  |  | || || |||||| |     |||  ||| | || |  ||| | | |   || |  
CGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGCCATCGTCCGCCTCACCCGCCCCACCCGCCCCGACAAGGCCCGCCGCCTCGGCTACAAGGCCAAGCAGgttacctcccctcctccagatgttctcttgtgcccgcggttgatgatggtgttaatgtttgaagt--attgatc-tgtcctgtagaaatggaggcttactttt--

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgcgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt-----
 ||| | ||||||||||| |||||||| ||  | || ||  ||  ||| |||||||| || ||||| ||||| |||||| | ||||||||||||||||||||        || |||||||  | || ||   |       | |   | |||    ||     | |    ||| |        ||||   ||||  |  ||     
CGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGCCATCGTCCGCCTCACCCGCCCCACCCGCCCCGACAAGGCCCGCCGCCTCGGCTACAAGGCCAAGCAGgtcgcttcccttcttcttac--tagactg---tccccctctctcgctcttactactgtgcccgcggatctgtatcaatcgacgatggatttcgccttggttgctg

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G034794_T02 (Zea mays), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattg-cgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt
 ||| | |||||||||||  | ||||| ||  | || ||  ||  |||  | |||||||| || || ||||| |||||| | ||||||||||||||||||||     |  |       | ||   |||| ||       | |||     | ||   |  ||  |   |     ||  ||  ||| ||  |       | | 
CGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGCCATCGTCCGCCTCACAAGGCCCACTCGTCCTGACAAGGCGCGCCGCCTCGGCTACAAGGCCAAGCAGgtagatctcctccagtgcagatcccattggcgcgcgcgaactttgacggtgatggatttatgggtaggggaaggtcggggggtggtgcagccgcgcaggg-

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G180724_T01 (Zea mays), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgcgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtga--tgatgttcgtttgtgt
 ||| | |||||||||||  | ||||| ||  | || ||  ||  |||  | ||||| || ||||| ||||| |||||| | ||||||||||||||||||||     || |     |  |   ||    |  |||  |    |   |||     | |  | |||  |     |       || |  |    || ||   |||
CGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGCCATCGTCCGCCTCACAAGGCCCACCCGCCCCGACAAGGCCCGCCGCCTCGGCTACAAGGCCAAGCAGgtagatcttctcccattggcgcgtgccaac--tttgatgcgatggatttgtggatagggtgtggtggtgcagggattaccgtcatttaggattagtccctgt

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G15230.1 (Glycine max), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatca----ttgtttttcttacatt-tgattgcgattttttattttattttttatatttgaatttgg----gcgattgtgttcggttgtgatgatgttcgtttgtgt
||||||||||||||||||||||||||| ||||| |||||  |    ||  |  | ||||| || ||||||||||| |||||||| | |||||| |||||||| |  |    || ||| | | ||||  |  ||| |  || ||    |  |  || ||| |  ||||||     ||| |||  |   || | | | | ||         
GGTGAGGTGCTGGGAGTATCGCCAGCAACCTTCTATTGTCCGTTTGACAAGGTCTACTCGCCCAGATAAGGCTCGTCGCTTGGGTTTCAAGGCTAAGCAGgtgaggaaattttatttgtttgacatgatttttgagggttattcacctgataattctatctccatttggttttacgagtgttgtattttctaacggtttt---------

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G04870.1 (Glycine max), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgcgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgt-ttgtgt--
|||||||||||||||||| |||||||| ||||| |||||  |    ||  |  | ||||| || || ||||||||||||||||| | |||||| |||||||| |  |   ||||  ||   |||||    |||||||    ||  ||    |  |  | ||    | |||  |||  |      | || ||     ||| |  
GGTGAGGTGCTGGGAGTACCGCCAGCAACCTTCTATTGTCCGTTTGACAAGGTCTACTCGCCCAGACAAGGCTCGCCGCTTGGGTTTCAAGGCTAAGCAGgtgaagaaatttttatttg--tttgac-atgatttttggggtttattcacctgataaatttatttccatttggttttgcgagagtaatatttaaactgttttc

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G16720.1 (Arabidopsis thaliana), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgc-----gattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt
||| ||||||||||||||  | ||||| ||||| |||||  |   |    | || ||||| || ||||||||||| || ||||| ||||||||||||||||| |   || |    | || |||||| |       |||||| | |  ||||  | ||   ||   ||  ||  |  |  |  ||| ||  || ||| | ||||  
GGTTAGGTGCTGGGAGTACAGACAGCAACCTTCGATTGTTCGTCTCGTCAGGCCTACTCGTCCTGATAAGGCTCGTCGTTTGGGTTACAAGGCCAAGCAGgtgactctt-taaaccctaaatttgagttttagctgattttgtttcatattggtgatcactgctgttcagctgt-ataatgagttttgtagacgtt-gattgt--

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G17390.1 (Arabidopsis thaliana), 5'ss of exon 2
GGTGAGGTGCTGGGAGTATCGCCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacattt-gattg-cgattt------tttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt
||| ||||| ||||||||||||||||| ||||| |||||  |       || |||||||| ||||| |||||||| ||  | ||||||||||||||||||||  |  |  | ||   | ||||| | ||  | ||||      ||||  | || || |  | |  |   |   ||||||  | | | |     | |||          
GGTTAGGTGTTGGGAGTATCGCCAGCAGCCTTCCATTGTTCGTCTTGTTCGTCCCACTCGTCCCGACAAGGCTCGTCGTCTCGGCTACAAGGCCAAGCAGgtctttttcttcttctcttcattttggttatcaatttaataggtttaggtaatgttgttgaatcaagccttatcgattgattgctggttaagcggtgtct--------

upper sequence: Vv16s0013g02020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: EDP06755 (Chlamydomonas reinhardtii), 5'ss of exon 2
---------GGTGAGGTGCTGGGAGTATCG---CCAGCACCCTTCAATTGTGTGCGCCACGCGCCCCACTCGACCCGATAAG-GCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattgtttttcttacatttgattgcgattttttattttattttttatatttgaatttgggcgattgtgttcggttgtgatgatgttcgtttgtgt
         ||   |  ||  ||  ||      | ||||    |   |||| | |  |  ||||      || | ||  ||  ||  || || || || ||||||  |||  ||     ||||    || |    ||||||      |   |   |  |  |  || |   |  ||     || | |   ||| ||  |              
CCCGGACAAGGCCCGCCGCCTGGGCTACAAGGCCAAGCAGGGCTACGTTGTCTACCGCGTGCGC---GTCCGCCGCGGCAACCGCAAGCGGCCTGTGC-ACAAGgtaaagtcggc-ggaattgcagctcct---cttgattttccactcccacaatgctcctgctaatgctaaatgtcactttttttcttgttttgcag--------------

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|77577251|gb|DV217329.1|DV217329
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|110688477|gb|EE067077.1|EE067077
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|161708611|gb|FC061307.1|FC061307
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|77584870|gb|DV221515.1|DV221515
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|77585149|gb|DV221663.1|DV221663
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|71876495|gb|DT025550.1|DT025550
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|77584906|gb|DV221536.1|DV221536
EST:     GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
EST: gi|351023690|gb|FQ448241.1|FQ448241
EST:     GCCCCACTCGACCAGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAG                         GGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA
genomic: GCCCCACTCGACCCGATAAGGCTCGCCGCTTGGGCTACAAGGCCAAGCAGgttatcattg ... atcttttcagGGTTATGTGATCTATCGTGTACGTGTAAGACGCGGTGGAAGGAAGAGGCCA