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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcatttttttacacttgactgcaactttctcaggtcaactgtagcttt...

Basic information

species Zea mays
transcript GRMZM2G071877_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G071877_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g62700.1 (Oryza sativa), 5'ss of exon 5
CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcatttttttaca--cttgactgcaactttct--caggtcaactgtagcttt
||||||||||||| |||||||| || || ||||| |||||||||||||| || || ||||||||||||||||| ||||| ||||||||||||||||| ||||||| || ||||  |  ||   |||    |  || |    | || |   |  | | ||  | ||   || | | || |        || | || | ||  || 
CAAAAATTGCAGATTTCAATCTCTTAAATCAAGCTCCAGATATGGCAGCACGCCTTCATTCAACTCGTGTATTAGGAACCTTTGGATATCATGCACCAGAgtaat-gtctaat--ttataccaatgcatttcttcatagaactcactatatcgcgtcttacttcaatttttaatccagcccaacagtagttaaaatatatgtt-

upper sequence: GRMZM2G071877_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA20G38980.1 (Glycine max), 5'ss of exon 6
CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcattttt---ttacacttgactgca-actttctcaggtcaactgtagcttt
| || || || ||||| || ||||  || || || || || ||||| || ||||| ||||||||||||||||||||||||||||| |||||||| || ||||||   |  |  ||       |||  ||||| |  | | | |||||   |||||| |||   ||  | |    ||||  || ||     | |   | |     
CCAAGATAGCTGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGTCTTCATTCAACTCGTGTATTGGGAACTTTTGGTTATCATGCTCCAGAgtaagcttcgagaacctgctagcatt-taatttttatat-ctacatttgctttcatatttcctttgaattcatatgcatgctatcatgtattacaaggaagg--

upper sequence: GRMZM2G071877_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 6
CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcattttt---ttacacttgactgca-actttctcaggtcaactgtagcttt
| || || || ||||| || ||||  || || || || || ||||| || || || ||||||||||||||||||||||||||||| |||||||| || ||||||   || |  ||   |  |  |  | | | |  | | | |||||   |||||| |||   ||    |    ||||  || |||    | |   | |  || 
CCAAGATAGCCGACTTTAACCTTTCTAATCAGGCCCCTGACATGGCTGCACGCCTTCATTCAACTCGTGTATTGGGAACTTTTGGGTATCATGCTCCAGAgtaagctttgagaacc--tgctagtatttaattttatat-ctacatttgctttcatatttcctttgagttcatgtgcatgctatcttgtattacaaggatttt-

upper sequence: GRMZM2G071877_T01 (Zea mays), 5'ss of exon 5
lower sequence: AT2G43230.1 (Arabidopsis thaliana), 5'ss of exon 4
CAAAAATTGCAGACTTCAATCTTTTGAACCAAGCACCAGATATGGCAGCTCGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgtttaatactcttattcatgataattatcttctgccacattcattttcatttttttacacttgactgcaactttctcaggtcaactgtagcttt
| || ||||| ||||| |||||||  || ||||| || |||||||| |||||||| ||||| ||| | || ||||| || || || ||||||||||| ||||||       |||  |||   |||  | ||              || ||| | | |   | | |   || || ||||||    |||   | |       
CCAAGATTGCTGACTTTAATCTTTCCAATCAAGCTCCTGATATGGCTGCTCGTCTTCATTCCACTAGAGTTTTGGGGACCTTCGGTTATCATGCACCAGAgtaa-------atatgcttcaacat--tgatagctcggaattttcttgattcttagtaactgaaa---gaatgtaacttt---gggtttgcag-------

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|5325221|gb|AI783412.1|AI783412
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGGACTGGGGCCAGCTGGACACAAAAAAGCGATGTCTACAGCT
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTAT-GACT--GGCCAGCT-GACACAAAAAAGCGATGTCTACAGCT
EST: gi|6020326|gb|AW065254.1|AW065254
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|31357837|gb|CD442194.1|CD442194
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|6227256|gb|AW155855.1|AW155855
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|60348834|gb|DN215807.1|DN215807
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|31351642|gb|CD435999.1|CD435999
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|211301860|gb|FL439774.1|FL439774
EST:     ACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: ACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|211452177|gb|FL052895.1|FL052895
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG
EST: gi|5860445|gb|AW011667.1|AW011667
EST:     CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCAGGCACCTGA                         GTATGCTATGACTGGCCAGCTGACACAANNNNNNNATGTCTACAGCTTTGG
genomic: CGTCTCCATTCAACTCGTGTATTGGGAACTTTTGGATATCATGCACCTGAgtaattgttt ... cttggtacagGTATGCTATGACTGGCCAGCTGACACAAAAAAGCGATGTCTACAGCTTTGG