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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtcttatccttctattcagttttatttttcaagaatcacatgcaattctgcattagtccttgacattgttgttactatggcag

Basic information

species Vitis vinifera
transcript Vv04s0008g02630.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os06g48700.1 (Oryza sativa), 5'ss of exon 9
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatcc--ttgtcttatccttc---------------tattca-gttttatttt-tcaagaatca-----catgcaattctgcattagt--------ccttgacattgttgttactatggcag
||| ||||| ||||||||||| |||||||| |||||||| |||||||| ||||| ||||||| |   |||   || |  || || |||| ||||||| | ||  | ||   |   ||| | | |                 || || |||||||||  | ||    ||     |    || ||||||||  |         ||    | |  ||  | | | ||||
AAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCTAAAGCTTACAGGGCTGTTGACACAAGCTTTGAACTGCTTAAGAATATTTCGgtgagctctggtatacttgtacatgcaaaagaaggggaaacatacatgttttatttccttaatggccaattttcgcaaaaatctgcattcttgggatttgtctaattaataatgaaatttttgcag

upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os02g07880.1 (Oryza sativa), 5'ss of exon 9
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtct-tatccttctattcagtttta--tttttcaagaatcacatgcaattc-tgcattagtccttgacattgt-tgttactatggcag--
 || ||||| ||||||||||| |||||||| |||||||| ||||||||||   | || || | |   || || |  || |  ||| | | ||| || || ||| | ||    ||  ||       |     |||      |||    | | |||||   |   ||  |     |||  || |||   ||||| | |     
TAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGGTCGTATAGAGCTATTGATGTTACCTATGCACTCTTGAAGAACATAACGgtatgctctacatcggtaaatggacacatgctttcggccctttgccaattgacatgtcctctatgtgtggacacttaccaatgtactttactgttgtgtag

upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os04g51794.1 (Oryza sativa), 5'ss of exon 8
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtcttatccttctattcagttttatttttcaagaatcacatgcaattctgcattagtccttgacattgttgttactatggcag
 |||||||||||||| ||||| || ||||| ||||| ||||||||||| ||||| ||  |||   | || || |  |||||||| || | |||||| |||||| | || | || |||   ||    ||| |  || | |   || || |     |||  | | ||   |  ||  ||  || |   |   |   
CAACTGGTCTGTGACTCATGTTGACTGGTCTGAAGGGAAGTGGCATCCGAAAGCTTATCGGGCAAATGATGTTACATACGAGCTTCTGAAGAATATAACAgtatgttcttcgtattactgttta--tcattaataatataatagcataattcataatcttacttttaacactgtgatctttttctttgcag---

upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G057567_T02 (Zea mays), 5'ss of exon 8
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtcttatccttctat-tcagttttatttttcaagaatcacatgca--attctgcattagtccttgacattgttgttactatg--gcag
 || |||||||| || ||||| || ||||| ||||| ||||||||||||||||| ||| |||   |  |||| | ||  ||||| || | ||||||  ||||| | |  | | ||  || |  ||  ||  ||||  |  |    | |  | | |   |  ||    ||||| |   |  | ||    || ||  ||||
TAATTGGTCTGTAACCCATGTTGACTGGTCTGAAGGGAAGTGGCATCCAAAAGCTTACCGGGCAAAGCACGTTAATTTGGAGCTTCTGAAGAATATAGCAgtatg-tgttcgcctgctcatattacgtctattttcctggtggttatttgcctacggcacccttttctagtcgtaacccctttttgatctgtgctgcag

upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G114337_T01 (Zea mays), 5'ss of exon 9
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtcttatccttctattcagttttatttttcaagaatcacatgcaattctgcattagtcct-tgacattgttgttactatggcag
||||||||| ||||| || ||||||||||| ||||| || |||||||| ||||  ||||||| |   ||    || | |||||| || | ||| ||  | ||| |   |||||   | |||||     ||    |       | | |    |||  ||     ||| ||    |   |||  | | |   | |||
AAACTGGTCAGTGACGCACGTAGATTGGTCCGAAGGGAAATGGCATCCCAAAGTCTACAGGGCTGTGGATACGAGCTTCGAGCTGCTCAAGAACATCTCGgtaag---cttgttggagccttc-----agagagagagagagacagtttgttgcctttggtgtttaatctaacggttttgccgatgccccg-cag

upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G099255_T01 (Zea mays), 5'ss of exon 9
AAACTGGTCTGTGACACATGTAGATTGGTCAGAAGGAAAGTGGCATCCAAAAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatccttgtcttatccttctattcagttttatttttcaagaatcacatgcaattctgcattagtccttgacattgttgttactatggcag
 |||||||| ||||| ||||| || ||||| ||||| ||||||||||| ||||  ||||||| |   |||   || | ||| || || | | | ||  | ||| | ||   |  || |  |      |          ||      |  |||  | ||    |   ||     | |  |               
GAACTGGTCGGTGACGCATGTCGACTGGTCCGAAGGGAAGTGGCATCCCAAAGTCTACAGGGCTGCGGACACAAGCTTCGATCTGCTCAAGGACATCGCGgtaagctcggagcttttttttcaggcgcgaacaatccattaccttgtggcatttatttgactaacggtttcgcaaacggccacccag-------

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|30303469|gb|CB980263.1|CB980263
EST:     AAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACA                         GCTATTGATATGAGCTATCATGTCACAAGCAATGAAAAG
genomic: AAGCATACAGGGGTCAAGACGTCAGTTACGAGCTCCTTAGGAATATTACAgtacgatcct ... actatggcagGCTATTGATATGAGCTATCATGTCACAAGCAATGAAAAG