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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacattcatgttgcaatggttgatctatcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt...

Basic information

species Zea mays
transcript GRMZM5G864414_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacatt-catg--ttgcaatggttgat--------ctatcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt
|||||||||||||||||| ||||||| ||||| ||||| |||||||||||| ||||||||||||| |||||||||||||||||||| |||||||||||||||||| | |  ||   |  |  ||||  || |  ||||  ||  |||| ||||          | |   |  |  | ||||| | ||   |  | ||  |           
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatg-gctggtgggctgttatttttaaacctggcatgctttctaatgcttgagactgggagttgtttatgatgttctgttgtgcaatgcggcattaagtg----------

upper sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA16G08080.1 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttg---ttcttttttacattcatgttgcaatggttgatctatcctt-tcttgtttgttgcgaaacaagt-tactagttccagtcgtttt
|  ||||| || | |||| |  |||| ||||| |||||| | || |||| | |   | ||||||||||||||||||| ||||| ||||| |||||||||||||  || || |   | ||   || | |||    || ||| || |||  | |   |   ||| | || | |     | ||    | |||||  |    |      
CTGTTTTCTGAAAATGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGTTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgtttatcattgtgcaattgtgtttagggtttatgatgaaataatcgggtttcacttatattatatagcatggaatgtatatactatataatata-----

upper sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA01G35190.2 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacattcatgttgcaat-ggttgatcta--tcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt-
|  ||||| ||   |||| |  |||| ||||| |||||| | || ||||  ||   | ||||||||||||||||||| || || || ||||| ||||||||||  |  ||||   ||  | |    |    |  ||  ||   | || ||| ||   |   ||| ||| | || |  | || |     | |     | || || 
CTGTTTTCTGAAGGTGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGCCTTGCTTACATGCACCAGCGTGGATACTTCCATCGCGACCTGAAGCCTGgtacttattttttatttcatccacaatctggtagattatggtttaggatgaactgggtgtgttcatgtatattacatagcatgc----aatgtatattgtctta

upper sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA09G34610.1 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacattcat-gttgcaatggttgatctatcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt
|  ||||| ||  ||||| |  |||| ||||| |||||| | ||||||| |||   | ||||||||||||||||||| || || |||||||| ||||||||||  |  ||||   |   | |    |    |  ||  | |   ||| ||| ||     |  |  |||  |   | | |   | | |  |  | |   || 
CTATTTTCTGAAGCTGAAGTTAGAAATTGGTGTTTTCAAGTTTTTCAAGGTCTTGCTTACATGCACCAGCGTGGATACTTCCATCGTGACCTGAAGCCTGgtacttattttttattgcatccacaatctggtagattatggttttggatgaactgggagtgttcattttatattacatagcatgccatatatattttctt-

upper sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacattcatgttgcaatggt--tgatctatcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt-
|  ||||| || | |||| |  |||| ||||| |||||| | || |||| | |   | ||||||||||||||||||| ||||| ||||| |||||||||||||  ||  |||  | |||| | ||| |   |     ||   |||    |  |      |  ||||| |  |   | | |   |  ||  | |  |  | |  
CTGTTTTCTGAAAATGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGTTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttg--tttataattgtgcatttgtgtttagggtttatgatgaaaatagttgggtttcacttgtattatataacatagaatg-tatatactataatataa

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|31350095|gb|CD434452.1|CD434452
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|31353144|gb|CD437501.1|CD437501
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|18963939|gb|BM660715.1|BM660715
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
EST: gi|111991032|gb|EE331915.1|EE331915
EST:     TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTG                         AAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG
genomic: TCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggtt ... gcaatttcagAAAATTTGCTTGTTACAAAGGAACTCATCAAGATAGCGGATTTTGGGCTTG