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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag

Basic information

species Zea mays
transcript GRMZM2G059381_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: AT5G27600.1 (Arabidopsis thaliana), 5'ss of exon 19
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatct-taaggttgttgatctggatgcag----------------
|||||||| || ||||| || ||||||||||| ||||| ||||||||||| || ||||| ||| | || || |  ||| || | || || || ||  | |||||     | |  |  |      ||  |     |||| | | ||  | |    ||  | | | |    |||                
AAGAACATATTTAAGTTGGCGCAAGGAGAATATATAGCACCAGAGAAGATCGAAAATGTTTATACCAAATGTAGATTCGTTTCGCAGTGTTTCATTCACGgtaa--gcaaagactctactcacactatacatggcttcttcttcacttgtgctatttctcaaccgagc-cagaatgtctctattatag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 5'ss of exon 19
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaa--ggttgttgatctggatgcag
||||||||||| ||||| || |||||||| ||||||||||||||||| ||||||||||| |||||||| ||||| ||  |||| || |||||| |||||||||| |   |||   |  |   |           | || | | | |  | |  | || ||  ||||     ||
AAGAACATTTTTAAGTTGGCACAAGGAGAGTACATAGCTCCAGAGAAAATTGAGAATGTATATGCTAAATGCAAATTTGTTGCCCAGTGCTTTGTATATGgtaagaaaaatgagattttacaaatctctc-tttcatcttttgcctgctgactgcttatttctctgatgatag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: Vv14s0128g00720.t01 (Vitis vinifera), 5'ss of exon 19
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatg---ctttcatctgagctgaaagcaccttcgt---gtacatcttaa-ggttgttgatctggatgcag
|||||||| |||||| | || || || ||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||  || | ||||| ||||| ||||||||     |||    || | |      ||    | ||   |    || |   ||   |  || | |  ||  |  ||
AAGAACATCTTCAAGCTGGCACAGGGTGAATATATAGCACCAGAGAAAATTGAGAATGTATATGCCAAGTGCAAATTTGTTTCCCAATGTTTTATCTATGgtaaggcagatggagtttacttgcagattgggccctccccagctaagttctctttgctgactgcttaattgattttag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S408_23V6.1 (Physcomitrella patens), 5'ss of exon 21
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag--------------------------------
||||| || || ||||| ||||||||||| ||||| || || |||||||| |||||||||||   |    |    |||||  | || || |  ||| |||||| | |||||  ||| |   |||  |||  |  | |    |      |||    ||||     | || ||                                
AAGAATATCTTTAAGTTGGCTCAAGGAGAGTACATTGCCCCGGAGAAGATCGAGAATGTCTACCTTCGCAGTCGTTTCATAACACAGTGTTACATACATGgta-tgttcattttttaaatggag--gaactcttcatttcttgtggtctaaacaagttgcaactggtgtagatgacttaagatttttttttcatctgaaatga

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S33_126V6.1 (Physcomitrella patens), 5'ss of exon 22
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgag----ctgaaagcaccttcgtgtacatcttaaggttgttga-----tctggatgcag---------------------
||||| || |||||||| ||||| ||||| ||||| || || |||||||||||||| |||||        |   ||||||||| || ||||||||  |||||    ||||| |  | |   |||    |      ||   ||     |||||    || |||||       ||| | | |                     
AAGAATATCTTCAAGTTGGCTCAGGGAGAGTACATTGCGCCCGAGAAGATTGAGAACGTCTACCTGCGAAGTCGGTTCATTGCACAGTGCTTTATTCATGgtg-cgttcattcaattaatggaggcatcccttctcattgtctcagtcatctgcttgtggttgaaacaccatggttactggggttgtgggtgctttaagag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S12_178V6.2 (Physcomitrella patens), 5'ss of exon 21
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag----------------------------------------------------------------------------------------------------
||||||||||||||||||||||||||||||||||| || || || |||||||||||  | |||  |    |   ||| ||| | || || ||  ||||||||    |||||   || |||   | |   | |   ||  ||            || ||  | ||   | |                                                                                                     
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATTGCACCGGAAAAGATTGAGAACATTTATCTTCGCAGTCGGTTTATTTCGCAGTGTTTCGTATATGgtg-cgttcat---ttaatcgacggtcgcatctttttaatgattgcacgttactttttcgtgtgacggaaacgtgtagcaactggtgttacgtatactggaaaaactaccaactcattgaaatccaatcattcttaccaatcgtataattggttggtggtgaattgcacag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: EFJ33980 (Selaginella moellendorffii), 5'ss of exon 20
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag
||||||||||| ||| | || || || ||||||||||| ||||||||||||||||||||||||  |||  |||||||| ||||||| || ||  | || ||| | |   ||  | |  | ||    |  |||   || |   |||  |     |  | |||    |     
AAGAACATTTTTAAGCTTGCACAGGGTGAATACATAGCGCCAGAGAAGATTGAGAATGTCTATCATAAAAGCAAGTTCGTTGCTCAGTGTTTCGTCTACGgtgagaacaattttgttttgtgtctagcgagcggttttg-acacaattc----tcttcgattgtaacag--

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: EFJ37488 (Selaginella moellendorffii), 5'ss of exon 20
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcac-cttcgtgtacatcttaaggttgttgatctggatg-cag-------------------------------------------------------
||||||||||| ||| | || || || ||||||||||| ||||||||||||||||||||||||   ||  |||||||| ||||||| || ||  | || ||| | |   ||  | |  | ||    |  ||  | | | | | |    |   ||| | |||   | ||| ||                                                        
AAGAACATTTTTAAGCTTGCACAGGGTGAATACATAGCGCCAGAGAAGATTGAGAATGTCTATCAAAAAAGCAAGTTCGTTGCTCAGTGTTTCGTCTACGgtgagaacaattttgttttgtgtctagcgagtccacctggcgaaaggatc--ggtcgctgaatagcatggcaaagttttctccctatgtgtgactcggttttgacacaattctcttcgattgtaacag

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|60395514|gb|DN228384.1|DN228384
EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
EST: gi|60399365|gb|DN232179.1|DN232179
EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
EST: gi|9732348|gb|BE511100.1|BE511100
EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGAGG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG