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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc...

Basic information

species Zea mays
transcript GRMZM5G825110_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g55360.4 (Oryza sativa), 5'ss of exon 6
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcattaggataattttatagcaatgttttttt---tgaaattatgagatctgtttata-gccttatctctttggctc-
|||||||||||||||||||||  | |||||||| || ||||||||||| ||||||||||||||||||||||| |||||||||||||| ||||| ||| ||||||||     | |||   || |||  |  ||    || || | || | ||| |  | |   | |  |     | | | |||  | ||   |   || || | | 
GTTCTTTCTTGGGAGAACACCTCTGATCAAGTTATCTCCAAAGAAAACTTGGGAAGGTTTTATTGGTGCATCTGTGACAACTATCATATCTGCTTTTGTGgtgaga-----tgaaagcttctgttaattgtttttgtagttctctaactatgctagtctatgtcagttagcatggtttattttcacgcaagactactatgccact

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 6
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc----------
 |||||  |||| ||||| || || |||||||| || ||||||||||| ||||| |||||||| || ||||| || || || ||||||||||||||| |||||||         ||||     ||  | || | |||      || |  ||||||||||     ||  | ||| || || |      |||    |  ||           
TTTCTTCTTTGGAAGAACCCCTTTGATCAAGTTATCTCCAAAGAAAACTTGGGAGGGTTTTATAGGGGCATCTGTTACCACCATCATCTCTGCATTTATGgtgag------cagaatttcaatttgttaatcaagatgcaacaattgggatgttttttt---ggttgggggat-tgcttgtcattgaatcagaatcacttgttgatgttt

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA14G02210.1 (Glycine max), 5'ss of exon 4
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcattaggataattttatagca-----atgttttttttgaaattatgagatctgtttatagccttatctctttggctc------------------------------------------------------------------------
 |||| | |||||||||||||  | |||||| | || ||||||||||||||||||||||| ||||| || || ||  | ||||| ||  ||||||||  ||| ||  |  || |    |      |  |||    | ||  ||  |  |     |  || ||| |     ||  |||||| ||| |    ||| |||     |||                                                                        
TTTCTATTTTGGGAGAACACCTCTGATCAAGCTTTCTCCAAAGAAAACATGGGAAGGTTTCATTGGAGCGTCTGTTGCCACTATGATTGCTGCATTTACGgtaagcatcagtcagtgacatcaactaccatcccaaaaagctttcaaaattcacaccttgtttatagctctactagatct-tttgtg--tttaactcacaacctccactttaagttgatttaatgatatttttcagtatttttgctttgcatgatgatgtcacttatgtttgtgcag

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA20G34940.1 (Glycine max), 5'ss of exon 6
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcatt-aggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc--------
 |||||  |||| ||||| || || || ||||| || ||||||||||| ||||| ||||||||||| |||||||| || || ||||||||||||||| |||||||        | | | ||  ||| | ||| | |||     ||| |  ||| |||||||    |   | |   || || |      |||    |  ||         
TTTCTTCTTTGGAAGAACCCCTTTGATTAAGTTATCTCCAAAGAAAACTTGGGAGGGTTTTATTGGGGCATCCGTTACCACCATCATCTCTGCATTTATGgtgag-------cacaatttcaatttgttattcaagatgcaactattgggatggtttttttttggtg--gggggttgcttgtcattgaatcaaaatcacttgttgatgt

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT4G26770.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtga-gactttgttaaattctcggtttctcattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc-----
 |||| | | |||| ||| ||  | ||||||||||| ||||||||||||||||||||||| || || ||||| ||  ||||||| |||||||||||| | || |  || || ||    | ||  ||  ||||| |      ||  || |  | ||| |||||   | | ||   ||| | | |   ||||||  || |  |     
TTTCTATTTCGGGAAAACTCCGCTCATCAAGTTGTCTCCAAAGAAAACATGGGAAGGTTTCATCGGAGCATCAGTTGCAACTATAATCTCTGCATTTATTgtaataaccttctt---ctatcatttattcattcg------ttcgtaac--tctttcttttggtctcaaga---ctgat-agattattatctgcttcgtacaacag

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G62430.1 (Arabidopsis thaliana), 5'ss of exon 6
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttct-----cattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc-----
 |||||  |||| ||||| || ||||| ||| |||| ||||||||||||||||| || || || || || || |||||||||||||||||||||||| | |||||  | |||||  ||  |     |      ||| |  ||  ||  ||       |  | |||    | |  |    | |  |  |  || | |   |          
TTTCTTCTTTGGAAGAACGCCTTTAATAAAGCTGTCTCCAAAGAAAACATGGGAGGGATTCATCGGAGCCTCTGTGACAACTATCATCTCTGCATTTGTTgtgagtatatgttacttttgccaccacatggcacatcaaaatgcttacatcatttcatcatctttttcttcaccatgcttctgaaatgttttgtatgcgtaatgtttcag

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT4G22340.3 (Arabidopsis thaliana), 5'ss of exon 5
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactttgttaaattctcggtttctcattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc
 |||||  |||| |||||||| || |||||||| || ||||||||||||||||| ||||| ||||| || ||  | || ||  | || |||||||| ||||| ||   |||||   || | ||   || || || |||  ||| | |    ||  |  ||||  |||  |    || || |     ||            
TTTCTTCTTTGGAAGAACACCGTTGATCAAGTTATCACCAAAGAAAACATGGGAGGGTTTCATTGGAGCTTCTATTACCACAGTGATTTCTGCATTCCTGgtaag--cttgtt---ttatggg---ctaataagtatatgttttttgacgagtagtaattga--ttaataatcttgcttgtttttgtag-----------

upper sequence: GRMZM5G825110_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv19s0090g01220.t01 (Vitis vinifera), 5'ss of exon 5
GTTCTTTCTTGGGAGAACACCATTAATCAAGTTGTCCCCAAAGAAAACATGGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagactt---tgttaaattctcggtttctcattaggataattttatagcaatgttttttttgaaattatgagatctgtttatagccttatctctttggctc
 |||||  |||| | ||| || || |||||  | || ||||||||||||||||||||||||||||| | ||| ||  ||||| | ||||| |||||| |||||||  ||      | | | ||  |      ||        || |    |      |  ||  |          ||  |||||    |||| |  ||     
TTTCTTCTTTGGAAAAACGCCTTTGATCAAACTCTCTCCAAAGAAAACATGGGAAGGTTTTATTGGAGGATCAGTTGCAACTGTGATCTCAGCATTTGTGgtgagtattgttcactgactcctttgaagtcgatatttgagcttctccttctgctcctccttccaggcccccgcttccttttatttatttatttaattat---

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|60344634|gb|DN211607.1|DN211607
EST:     ATTGGTGCATCCGTNGA-AACTATCATCTCTGCATTTCTG                         TTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG
genomic: ATTGGTGCATCCGT-GACAACTATCATCTCTGCATTTCTGgtgagacttt ... tctgtggcagTTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG
EST: gi|76014866|gb|DT942036.1|DT942036
EST:     GGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTG                         TTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG
genomic: GGGAAGGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagacttt ... tctgtggcagTTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG
EST: gi|76021500|gb|DT948670.1|DT948670
EST:     GGAAGGGTTTTATTGGGGCATCCGGGACAACTATCATCTCTGCATTTCTG                         TTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG
genomic: GGAA-GGTTTTATTGGTGCATCCGTGACAACTATCATCTCTGCATTTCTGgtgagacttt ... tctgtggcagTTAGCAAATGTAATGGGCCGTTTCCAATGGTTGACATGCCCAAGAAAG