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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgcctttttgcaatattatgcagcgagatgttaactgcgactcatgatgtgatcttgttcatttatacttcttactttgaactgcag

Basic information

species Zea mays
transcript GRMZM2G000645_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgcctttttgcaata--ttatgcagcgagatgttaactgcgac----------tcatgatgtgatcttgttcatttatacttcttactttgaa-ctgcag
|||||| |||||||||||||||||||| |||||||| |||||||||||||||||||||| |||||| |||||||||||||| |||||||| ||||||||||| ||   |||  ||||   |||||||| | |||||||    | |           | |||| ||||| |||| || | ||  |||| |   |||| |  |||
TCAAATCTTTGAGGGACATTCACACTACGTGATGCAAGTTACTTTCAATCCAAAGGATACTAACACTTTTGCAAGTGCATCTCTTGACCGAACTACAAAGgtctg---tttcacaatctcttatgcagtg-gatgttattcacaatatatggctttttatgaggtgat-ttgtgcactaatggttctaaaactgaaacaacag

upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgc-------ctttttgc-aatattatgcagcgagat----gttaactgcga----ctcatgatgtgatcttgt---tcatttatacttcttactttgaactgcag
 || ||||||||||||||||| || ||||| ||||| || || || ||||| || || |  ||||||||||| |||||||| ||||| ||||| | |||||||| |       ||| |||| | |  | | | ||    |    ||| | | | |    |  |||||   |  |      | || |||   | |||  ||    |||||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttcttgctagttgtgtcctgcattttctttgtttatttccaaacacctatgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgc-------ctttttgcaata-ttatgcagcgagat------gttaactgcgactcat----gatgtgatcttgt---tcatttatacttcttactttgaactgcag
 || ||||||||||||||||| || ||||| ||||| || || || ||||| || || |  ||||||||||| |||||||| ||||| ||||| | ||||||||          | ||  |  || || ||    ||  |      ||| | | | |  |||    |||   |  ||     | || |||   | |||  || || |||||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcgctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgttatcttcaattgcag

upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgta-tgcctttttgcaatattatgcagcgagatgttaactgcgact-catgatgtgatc-ttgttcatttatacttcttactttgaactgcag
||| ||||| |||||||| ||||||||||||||||| || || || |||||||| || |  ||||| ||||| |||||||||||||| || || | ||||||  ||   |  |  || ||  || | |   ||  |   |  | |  | |  |  | || || | | |||| |      |  || | || |||
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacat--tgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatg---catgttcatcttcag

upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgcc-----tttttgcaata---ttatgcagcg-agatgttaactgcgactcatgatgtgatcttgttcatttatacttcttactt--tgaactgcag
||| ||||||||||||||||| |||||||||||||| ||    || |||||||| ||||  ||||| ||||| ||||| || ||||| || || | |||||| ||       |    ||| |    || |   ||  || |   |   |  |||  | |   | | || ||    ||   ||| | |||  | |  | |||
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag

upper sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgcct-------ttttgcaatattatgcagcgagatgttaactgcgactca-tgatgtgatcttgttcattt-atacttcttactttgaactgcag-
||| || ||||| || ||||| ||||| |||||||| || || || |||||||| || |  ||||||||||||||||| ||||| || ||||||| |||||| ||  |       |||    |||   ||  | ||  |   |  || |  ||| ||   | || ||| || ||  ||| ||  |  | |  | ||    
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtggaaatgtttcttgataacctgttgtgaacttgaagatgtgtttcaatgtcctaatgttgatccttccatagttgattttattgattgtgtg

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|26457397|gb|CA828980.1|CA828980
EST:     GCACTACAAAG                         ATATGGAG-TTGGGTTCTCCAGATCCAAACTTCACACTTGATGGGCATCAA
genomic: GCACTACAAAGgtatgccttt ... tgaactgcagATATGGAGTTTGGGTTCTCCAGATCCAAACTTCACACTTGATGGGCATCAA
EST: gi|32931674|gb|CF036486.1|CF036486
EST:     CAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAG                         ATATGGAGTTTGGGTTCTCCAGATCCAAACTTCACACTTGATGGGCATCAA
genomic: CAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgccttt ... tgaactgcagATATGGAGTTTGGGTTCTCCAGATCCAAACTTCACACTTGATGGGCATCAA