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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagcctagaaactctttctcatgaaatatatatatatatatactatctctttcatatgttatgttatttatttggttttacttattcacccttttatattattttcttatgaatgtag

Basic information

species Vitis vinifera
transcript Vv16s0022g00660.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G178546_T01 (Zea mays), 5'ss of exon 5
GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgt-accctagcctagaaactctttctcatgaaatatatatatatatatactatctctttcatatgttatgttatttatttggttttacttattcacccttttatattattttcttatgaatgtag
  | ||||||||||| || ||||| |||||||| ||||||||||| ||  |  | | |       |        | |||||| ||| ||||||   ||| || |  |||   |  | |   || | |   |  || || | | ||  | || |||   |  | | |  | ||||     | ||                                          
ATTGTACTACGCTGGAAGCCATGGAATGGACATAATGGGCCCTGTTAGGAAGACTACTGACTCCAATGGCGTGGAATGTATTCGGTCAACTGATGTGCATgtgaaactactttctagatctttaccctcaatttaaatgttt-tacttgctttcttagt-gtgtatcttcttatcctcctcgtag----------------------------------------

upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G36570.1 (Glycine max), 5'ss of exon 5
GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagcctagaaactctttctcatgaaatatatatatatatatactatctctttcatatgttatgttatttatttggttttacttattcacccttttatattattttcttatgaatgtag
 || || ||||||||||||||||| ||||||||||| |||||||| ||||| ||  | ||| || | || | |||||| |||||||  || |||||||||||||       | |||| | | | || || ||| | | | | |  |||   ||||| |||  |  | |  | || | ||  ||| | | | |  |   | | |||||| ||   ||  |     
ACTTTATTACGCTGGTAGTCATGGAATGGACATCATTGGCCCTGTTAGACAATCTGTATCTGATAATCACCTAAATTGCATTAGGTCTACAGACAAGCAGgtacagggagtt-gaaagtttctatc-tgcaatctgttt-tgtgaata---tctctctcactttctgttctcttgaatta-tttcattaaatggcttctgt-tattatctttaaatttacag--

upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA12G00790.1 (Glycine max), 5'ss of exon 5
GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagcctagaaactctttctcatgaaatatatatatatatatactatctctttcatatgttatgttatttatttggttttacttattcacccttttatattattttcttatgaatgtag--
 ||||| || |||||||||||||| ||||||||||| || ||||| ||||| ||  | ||| || | || |||||||| |||||||  || |||||||||||||       |  ||  |  |     |||  | | | |||  ||||     |||| |||  |  | |  | ||| ||   || |  ||||| |     || | ||||| |||| | ||| ||   
ACTCTATTATGCTGGTAGTCATGGAATGGACATCATTGGGCCTGTTAGACAATCTGTATCTGATAATCACCCAAATTGCATTAGGTCTACAGACAAGCAGgtactgggagttgaaagtttctatctgtgatctgttt-tatgaatat-----ctctctcactttctgttctctttcttgaattat-tttattaaatggcttctgttattatctt-taaatttacag

upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S333_42V6.1 (Physcomitrella patens), 5'ss of exon 4
---GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagcctagaaactctttc----tcatg-aaatata-tatatatatatactatctctttcatatgttatgttatttatttggttttact-tattcacccttttatatt-attttcttatgaatgtag
     | || |||||||| |||||||| |||||||||||||| ||||  |    ||||     |  |   | |   ||  | || | |   |  || ||| |||||    |        |    |||    |  ||  |  ||| | ||  |  | | | | | ||  |     |  | |  | |  ||||| | || | ||   | | | || || ||  | || ||  |  ||
AGAATTATATTACGCTGGGAGTCATGGTATGGACATCATGGGGCCTGCGAATGGCTCCG---ATGGTTTTCGTGTGAAAGGAATCAAGGCCAGAGATAAGAAGgtattaaaattcttgtatctgttcgtagttgtgtgagcatactgtacttgaagattttttgttcaaggatctgagatggtgagctggttatcctctttttgacatctaatcttcatccttttttgtctacag

upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S227_48V6.1 (Physcomitrella patens), 5'ss of exon 4
---GCTCTACTACGCTGGTAGTCATGGGATGGACATCATGGGCCCTGTCAGACACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccc--------tagcctagaaactctttctcatgaaatatatatatatatatactatctctttcatatgttat-gttatttatttggttttacttattcacccttttatattattttcttatgaatgtag
    || || |||||||| |||||||| ||||| |||||||||||||  | |  |||      |  |  ||     ||  |||  | ||  |  || ||   |||| |         || || || |||| |||   ||     |  |  ||| | ||| |||   |||| | |   || | | || |   |  ||| | |  |   |   | || |||||| |||     || ||
AGAACTGTATTACGCTGGGAGTCATGGCATGGATATCATGGGCCCTGCTAAAAGCTCGG---ATGGTTTCCGAGTTAAGGGTACCAAGTCTAGGGATAAAAGGgtatctattcttgataacccagcaactatttgaaatagcccaattcgata-aaatagtatggatttc-tgtacaatcgatgttcaaccgtgtttgccttcttggc---taatcttatttacttcaccttgcag

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|30254979|gb|CB971426.1|CB971426
EST:     ACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAG                         GGTAAGGAAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATC
genomic: ACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagc ... atgaatgtagGGTAAGGAAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATC
EST: gi|110365313|gb|EC928101.1|EC928101
EST:     ACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAG                         GGTAAGGAAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATC
genomic: ACTCCATTTCTAATGACCATCCAAATTGTATTAGGTTAACTGACAAGCAGgtaccctagc ... atgaatgtagGGTAAGGAAGTTAATTTGTTCCAGCCTGCGAGTGAATTTTTACCCATGATC