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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCGCGACCTCAAGCCGGAGAACTTCCTCTTCGCCAATAAGAAGGAGAACTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcacaccaaccgagatcctttcccaaattcggacgattttctgcgcatcttcaaccgtgatttctggttttagtgggaggaaacttacttgacgg...

Basic information

species Zea mays
transcript GRMZM2G311220_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G311220_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g61590.1 (Oryza sativa), 5'ss of exon 1
CACCGCGACCTCAAGCCGGAGAACTTCCTCTTCGCCAATAAGAAGGAGAACTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcacacc-aaccgagatcctttcccaaattcggacgattttctgcgcatcttcaaccgtgatttctggttttagtgggaggaaacttacttgacgg-
||||| ||||||||||| |||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||| ||| || |   |  || |||||||| ||||||| |||| || ||| ||  | |    |   | |   || |          | |||    ||  | | | || 
CACCGGGACCTCAAGCCCGAGAACTTCCTCTTCGCCAACAAGAAGGAGAACTCGCCGCTCAAGGCCATCGATTTCGGCCTCTCCATCTTCTTCAAGCCCGgtaagccctgcagaatcgagatccgttcccaatttcgaacaattatccactcgcactt--ctgaatttccgtacagcctcgtgagatctctagcctaatggt

upper sequence: GRMZM2G311220_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G18310.1 (Glycine max), 5'ss of exon 1
CACCGCGACCTCAAGCCGGAGAACTTCCTCTTCGCCAATAAGAAGGAGAACTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcacaccaaccgagatcc--tttcccaaattcggacgattttctgcgcatcttcaac-cgtgattt--ctggttttagtgggaggaaacttacttgacgg
||||||||||||||||||||||||||| | ||||| || ||||||||||| |||||||||||||| || || || || |||||||| ||||||||||| |||  |       ||    ||| |  |||     |||  |  ||||   |  | |  ||  |   |||| ||  ||| | || || |  |||    |||| |  | 
CACCGCGACCTCAAGCCGGAGAACTTCTTGTTCGCGAACAAGAAGGAGAATTCGCCGCTCAAGGCAATTGATTTTGGCCTCTCCATATTCTTCAAGCCAGgtacgctg----aatttggattcggtttagtgcattgcgtggattcggtttggagtttggaggtgtgacttgtctgctgtttgtagttggatttctact-gttgt

upper sequence: GRMZM2G311220_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 3
CACCGCGACCTCAAGCCGGAGAACTTCCTCTTCGCCAATAAGAAGGAGAACTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcacaccaaccgagatcc--tttcccaaattcggacgattttctgcgcatcttcaac-cgtgatttctgg--ttttagtgggaggaaacttacttgacgg
||||| ||||||||||||||||||||| | ||||| || ||||||||||| |||||||||||||| || ||||| || |||||||| ||||||||||| |||  |       ||    ||| |  |||     |||  |  |||||  |  | |  ||  |   |||  || ||   | ||  | |  |||    |||||||   
CACCGAGACCTCAAGCCGGAGAACTTCTTGTTCGCGAACAAGAAGGAGAATTCGCCGCTCAAGGCTATTGACTTTGGCCTCTCCATATTCTTCAAGCCAGgtacggtg----aatttggattcggtttagtgcattgtgtggatttggtttggagtttggaggtgtggcttgtgtgctgtttatagatggatttctacttgatt-

upper sequence: GRMZM2G311220_T03 (Zea mays), 5'ss of exon 1
lower sequence: EDP04678 (Chlamydomonas reinhardtii), 5'ss of exon 7
----CACCGCGACCTCAAGCCGGAGAACTTCCTCTTCGCCAATAAGAAGGAGAACTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTC-AAGCCTGgtgagtcacaccaaccgagatcctttcccaaattcggacgattttctgcgcatcttcaaccgtgatttctggttttagtgggaggaaacttacttgacgg
    ||||||||||| |||||||||||||||||  |  |  |       |      || |||| ||||| |  ||||||||||| ||   ||||||| | |   |  | |   | ||   ||  |||   |  | |||  ||  |    | ||     |  |  | | |||   || ||  |   |  |    |  |  ||    
CATTCACCGCGACCTGAAGCCGGAGAACTTCCTGCTGTCGGACCGCTCCGCCGCGGCGGCGCTGAAGGCGACGGACTTCGGTCTGTCGTCCTTCTTCCAGgtgcgcgggggtgctcctggcgc-atcgggtgaccaatggggcagtgggtttggaagacagcggcag-gatgcgtgtttgcaaccgtggcgtgcaaatgtgg---

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|149085145|gb|EE174649.2|EE174649
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTG                         GTGAAAAAGTTTTCAGAAATTGGTGGGAAGCCCCTATTACATGGCTCCTGA
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAA-GTTTTCAGAAATTG-TGGGAAGCCCCTATTACATGGCTCCTGA
EST: gi|149102142|gb|EE287576.2|EE287576
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTG                         GTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG
EST: gi|21432179|gb|BQ547669.1|BQ547669
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTG                         GTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG
EST: gi|149113217|gb|EE288137.2|EE288137
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTG                         GTGAAAAAGTTT-CAGAAATTGTGGGGAAGCCCCTATTACAT
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAA-GTTTTCAGAAATTGTGGG-AAGCCCCTATTACAT
EST: gi|71774878|gb|DR972756.1|DR972756
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTG                         GTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCT
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCT
EST: gi|78118424|gb|DV536810.1|DV536810
EST:     CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCTATCTTCTTCAAGCCTG                         GTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG
genomic: CTCGCCGCTCAAGGCCATCGACTTCGGTCTCTCCATCTTCTTCAAGCCTGgtgagtcaca ... tctactttagGTGAAAAGTTTTCAGAAATTGTGGGAAGCCCCTATTACATGGCTCCTGAAG