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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTGACATACGAAGAGCAATCTTTTGTATTATAATGAGTGCTGAAGACTATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatcaatgttcctgaagattagttgtcttgttgttcatgtatttcacaatattattgatgtatgccttttcctgcgtatgatatgcag

Basic information

species Zea mays
transcript GRMZM2G111138_T03
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G111138_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g05450.1 (Oryza sativa), 5'ss of exon 8
CACTGACATACGAAGAGCAATCTTTTGTATTATAATGAGTGCTGAAGACTATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatcaatgttcctgaagattagttgtcttgttgttcatgtatttcacaatattattgatgtatgccttttcctgcgtatgatatgcag
|||||||||||||||||||||||| || ||||||||||||||||| |||||||||||||||||||| |||||||||||| ||| |||||| ||||||||||  |||    || |||   ||| |   |||| ||| |   | ||| | || || |||||      |||||| ||||||   | ||  ||| ||
CACTGACATACGAAGAGCAATCTTCTGCATTATAATGAGTGCTGAGGACTATGTAGATGCTTTTGAGAAGCTCTTGAGGTTGGACCTTTCCGGGAAGCAGgtgtgct---atcttctgtaagttccattgttttgct---cgtgtctctctcagtattacc----tatgccatttcctctatttg-catgaag

upper sequence: GRMZM2G111138_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G04250.1 (Glycine max), 5'ss of exon 10
CACTGACATACGAAGAGCAATCTTTTGTATTATAATGAGTGCTGAAGACTATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatcaatgttcctgaagattagttgtcttgttgttcatgtatttcacaatattattgatgtatgccttttcctgcgtatgatatgcag
||| ||    ||||| |||||||||||||| ||||||||||  || |||||| | ||||| ||||| |||||  | ||  |||   |  | || ||||||| | || |     |||||      |  || | ||    || |   || |   | | | | |  || |  | | |  ||   | |||||| |||
CACAGATGCCCGAAGGGCAATCTTTTGTATAATAATGAGTGGGGAGGACTATCTTGATGCATTTGAGAAGCTTCTAAGATTGGAGTTACCAGGCAAGCAGgtaagcctttcatttcct------tcatttttttaaactttagaaatgtttta-tttcaattctgcagccttctatct---tgtgatatacag

upper sequence: GRMZM2G111138_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA19G29170.1 (Glycine max), 5'ss of exon 10
CACTGACATACGAAGAGCAATCTTTTGTATTATAATGAGTGCTGAAGACTATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatcaatgttcctgaagattagttgtcttgttgttcatgtatttcacaatattattgatgtatgccttttcctgcgtatgatatgcag
||| ||     |||| |||||||||||||| ||||||||||  || |||||| | ||||| ||||| |||||  | ||  |||  ||  | || ||||||| | || |     |||||  |   |  ||  ||| |   |   ||| |     || | | |  | | || | || | | | | |||||| |||
CACAGATGCTAGAAGGGCAATCTTTTGTATAATAATGAGTGGGGAGGACTATCTTGATGCATTTGAGAAGCTTCTAAGATTGGAACTACCAGGCAAGCAGgtaagccttttatttccttca---tgttttccttttcactttagtaatgtgttatttcaat--tctgtggccttccat-catgtgatatacag

upper sequence: GRMZM2G111138_T03 (Zea mays), 5'ss of exon 9
lower sequence: Vv08s0056g01280.t01 (Vitis vinifera), 5'ss of exon 9
CACTGACATACGAAGAGCAATCTTTTGTATTATAATGAGTGCTGAAGACTATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatcaatgttcctgaagattagttgtcttgttgttcatgtatttcacaatattattgatgtatgccttttcctgcgtatgatatgcag
||| ||     |||| |||||||||||||| ||||||||||  ||||||||  | ||||| ||||| |||||  ||||| |||   |  |||||| |||||        |||| |       |||| |  | || || ||  | | |||     |   |||     || | |  || || |||   | | |||
CACAGATGCCAGAAGGGCAATCTTTTGTATAATAATGAGTGGAGAAGACTACCTTGATGCATTTGAGAAGCTTCTGAGGTTGGCTTTGGCTGGGAGGCAGgtgc----taatggtttctttcattattaatttttttttttttttgttttgttcttccatttcgtgatacttactcgtgtgta---tttacag

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|76021432|gb|DT948602.1|DT948602
EST:     ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
EST: gi|61118078|gb|DN559039.1|DN559039
EST:     ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
EST: gi|60340241|gb|DN207214.1|DN207214
EST:     TAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: TAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
EST: gi|60345567|gb|DN212540.1|DN212540
EST:     ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
EST: gi|6564094|gb|AW231716.1|AW231716
EST:     ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
EST: gi|61118077|gb|DN559038.1|DN559038
EST:     ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAG                         GACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG
genomic: ATGTAGATGCTTTTGAAAAGCTCTTGAGGCTGGGCCTTTCTGGGAAGCAGgcatgcatca ... tgatatgcagGACCGAGAAATTATAAGGGTCATTGTTGACTGTTGTCTGCATGAGAAGATG