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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAGgtttgtctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgttcttgttagacagcccatatccactgttgcgttgctg...

Basic information

species Zea mays
transcript GRMZM2G009785_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g17650.1 (Oryza sativa), 5'ss of exon 5
GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggtttgt----ctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgttcttgttagacagcccatatccactgttgcgttgctg
|||||||  || ||||||   || || |||||||||||||| |||||||||||||||||||||||||||||||| ||||||||| ||||||| |||||||||||||    ||||||       ||| | || | |   |     |    | || || |   | | ||| |  ||  |  |   ||  |   |||  |  ||   
GATGTCACGTCAAAGCAGAAATCAACTGCTGGTTGGCTTGCTGCTTTTCCTTTCTTTGAACCTCATTGGCAAATATGCATGGCTGGTGGCTTATCCACAGgtttgtatttctttgtatttgataaactgaacagagagatatttaatttttctttttacctactggttttcattcta-ggtagatggcacatgtgccactg---

upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA04G08750.1 (Glycine max), 5'ss of exon 6
GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggt-ttgtctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgt-tcttgttagacagcccatatcc--actgttgcgttgctg-
|||||    |||| ||||  ||| || ||||| |||||||||||||||||| | |||||||| ||||||||||| ||||||||| ||||  |||| |||||| || |||   ||  |||  |      | ||||   |     |  |    ||  |    | || || || | |  |    || ||   ||||   | |      
GATGTTGGTTCTACGCAGAAGTCTACTGCTGGGTGGCTTGCAGCTTTTCCTGTTTTTGAACCACATTGGCAAATATGCATGGCTGGTGGACTGTCAACAGgtattttctacttgttcagctat---tggctattcgatcttttatttat--tttgtggtctagtgtcctgcttgttatgttatgtctgaactgaaacatgataat

upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G08850.1 (Glycine max), 5'ss of exon 5
GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggt-ttgtctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgt-tcttgttagacagcccatatcc--actgttgcgttgctg-
|||||    || | ||||  ||| || ||||| |||||||||||||||||| | |||||||| ||||||||||| ||||||||| ||||  |||| |||||  || |||   ||  |||  |      | |||||  |     |  |    ||  |    | || ||    | |  |    || ||   | ||   | |      
GATGTTGGTTCCACGCAGAAGTCTACTGCTGGGTGGCTTGCAGCTTTTCCTGTTTTTGAACCACATTGGCAAATATGCATGGCTGGTGGACTGTCAACAGgcattttctacttgttcagctat---tggctatttgatcttttatttat--tttgtggtctagtgtcccacttgttatgttatgtctgaaatgaaacatgataat

upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT4G32770.1 (Arabidopsis thaliana), 5'ss of exon 5
GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggtttgtctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgttcttgttagacagcccatatcca--ctgttgcgttgctg-------------------------------------------------
|||||     | || |||  ||| || || || |||| ||||||||||||| | ||||| ||||||||||| || ||||||||  | ||| | ||||||||| ||   ||      |   |  ||||| || | | |    |        || |      |  |  |   ||| |    | |   |  |       || ||                                                  
GATGTTGGGGCCAAACAGAAGTCAACTGCAGGCTGGCCTGCAGCTTTTCCTGTATTTGAGCCTCATTGGCAGATATGCATGGCAGGAGGCCTTTCCACAGgtgtgagctttgcttgattgacttaaagttaataaatagacggttaa--gtttacttgcctagtactaacagaaaattaagaaagaaaccaccctctttctatcagcagaaactgctattgtagttcttattttttctcttgtatttgcag

upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv04s0008g03600.t01 (Vitis vinifera), 5'ss of exon 5
GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggtttgtctttgtgcacagaaaaataaagatatttactgagagacctgctattcataaatttgttct---tgttagacagcccatatccactgttgcgttgctg
 ||||    ||||| |||  |||||||||||| |||||||||||||||||| | |||||||| ||||||||||| ||||||||  | ||  | || |||||| |  |||  |   ||       |  | | |  |||        |    ||  |   ||  ||||   | ||    ||   |    || |||||  ||||  
AATGTTGGGTCTAAACAGAAGTCCACAGCTGGCTGGCTTGCAGCTTTTCCTGTATTTGAACCCCATTGGCAAATATGCATGGCGGGAGGACTCTCAACAGgtattgcttaatctccattttgcaagtggtttacacttgatttgtttaattttttgctttcattctaatttttgcttagttaactgtca-tgttgaattgc--

upper sequence: GRMZM2G009785_T03 (Zea mays), 5'ss of exon 5
lower sequence: PP1S9_51V6.1 (Physcomitrella patens), 5'ss of exon 6
--GATGTCAAATCTAAGCAGTTGTCCACAGctggttggcttgcagcttttcctttctttgaacctcattggcaaatttgcatggctagtggcttgtccacaggtttgtctttgtgca---cagaaaaataaagatatttactgagagacctgctattcataaatttgttcttgttagacagcccatatccactgttgcgttgctg
   ||   | | |    || ||| | ||||| |||||||| ||||   | ||| | || ||||| ||||||||||| ||||||||  |||| |||||||||||| ||    |    |   ||||| | |    || |  |   | |   ||    |    |   |     |  | |   ||    |   | |||     ||    
TCAATAGGAGAAC--GTCAATTGGCTACAGCGGGTTGGCTGGCAGTCATGCCTGTATTCGAACCACATTGGCAAATCTGCATGGCGGGTGGTTTGTCCACAGgtctgctcattactatttcagaagactccgcat-tccagcaaaaactcttaagtgtggaggctaagcgtcttgatttagaatgtgatcgctgg-aaattatc-

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|78117716|gb|DV536103.1|DV536103
EST:     TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTTGA-CCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTTCACAG
genomic: TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTT-GAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG
EST: gi|91870812|gb|EB401097.1|EB401097
EST:     TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG
genomic: TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG
EST: gi|71768258|gb|DR966195.1|DR966195
EST:     TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTTGAAC-TCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCCACAG
genomic: TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTT-GAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCC-ACAG
EST: gi|78106251|gb|DV524669.1|DV524669
EST:     TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG
genomic: TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG
EST: gi|78088275|gb|DV516668.1|DV516668
EST:     TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAA-TTTGCATGGCTAGTGGCTTGTC-ACAG
genomic: TCGTCCAGTTTATGGGTGGGGTGATGTCAAATCTAAGCAGTTGTCCACAGCTGGTTGGCTTGCAGCTTTTCCTTTCTTTGAACCTCATTGGCAAATTTGCATGGCTAGTGGCTTGTCCACAG