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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag

Basic information

species Zea mays
transcript GRMZM2G076276_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os06g49810.1 (Oryza sativa), 5'ss of exon 7
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag
 |||||||| ||||||||||||||||| || ||||| ||||| || || |||||||||||||| ||||||||||| |||||||||||||||||||| ||||| |||| ||||   |  |  ||  ||||| || ||| ||||    ||| ||   |   |   |  |  ||   |  |||  | |||||  | | ||  |       
TGAGAACTTAGAAAATCCTGATCTTTATCACTATGCCCTTTTTTCGGACAATGTTTTGGCAGCTTCAGTTGTGGTGAACTCAACCATCATGAATGCAAAGgtaagtgcaatctagagttc-aatttggaattgcaatttcttggcaatgactgagaaacatgtattcggta---aaaactgctcatttttctaccatgcag------

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA07G08910.1 (Glycine max), 5'ss of exon 5
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag--
 ||||| ||||| |||||   |||||| || || || || |||||||| ||||| ||||| ||||| ||||| ||||||||||| || |||||||| ||||| | |   |    | | || |   |   ||| |  | | | ||    ||  |   ||      ||  ||||| |   |   | ||  |   |  |   |    ||   
TGAGAATTTGGAGAATCCCAGTCTTTATCACTACGCACTGTTCTCAGACAATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCAAAGgtgacttggactgtctttttaaccataccagtatg-tgtgtgcaa---gtgcattgttt-----ccttttatagattgcaaataatggtgccttgaaggagcaccaaaa

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA09G40260.1 (Glycine max), 5'ss of exon 8
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaat----ccccatcttgaaactggaagtgta-atctcttcat---tatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag------------------------------------------------------------------------------------
 ||||| ||||| ||||||  ||| || |||||||| || ||||| || ||||| ||||| ||||| ||||| ||||||||||| ||  ||||||| ||||| | |  ||         | | |   | ||    |||  || |||  ||   |||   |     |  ||||   || || | |  |||    | | |   |   | || ||  |                                                                                    
TGAGAATTTGGAGAATCCTAGTCTCTATCATTATGCCCTGTTCTCGGACAATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTGTGAATGCAAAGgtgacttaaacagtcttttaccataccagtgtgtatgtgcatgtctatatagatattcttttatatagatgatgaataattt-gtgcttgcactgtacaacccggacatattttgtttgtgcagtgcatccctgactcagtaaataatataattaaactttgccttcattatcttatgtttgtgtcttcaacattgcag

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA03G02250.1 (Glycine max), 5'ss of exon 13
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaa---actggaa-----gtgtaatctc-----ttcattatgt---ctaccattgaa-------tgacc-----cattatatagcacttttgattttctttctataaattttcag------------------------------------------------------
 ||||| ||||| |||||   |||||| || || || || |||||||||||||| ||||| ||||| ||||| ||||||||||| || |||||||| ||||| | |        | | || |    ||  | |     ||| ||  ||     ||| || | |    | | | | |        |||||     ||  |||| |  | | |||   | | ||||| | ||   |                                                       
TGAGAATTTGGAGAATCCCAGTCTTTATCACTACGCACTGTTCTCAGATAATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCTAAGgtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcag

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G45750.1 (Glycine max), 5'ss of exon 7
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaa----actggaagtgta-atctcttcattatg----tctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag------------------------------------------------------------------------------------
 ||||| ||||| ||||||  ||| || |||||||| || ||||| || ||||| ||||| ||||| ||||| ||||||||||||||  ||||||| ||||| | |   |    | | ||  |    | ||   ||||| || |||  ||  ||    | |     |  ||||   || || | |  |||    | | |   |   | ||  |  |                                                                                    
TGAGAATTTGGAGAATCCTAGTCTCTATCATTATGCCCTGTTCTCGGACAATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACCATTGTGAATGCAAAGgtgacttggactgtctttttccataccagtgtgtgtgtacatgtctgtatagtgaatttttttttatagatgatgaataattt-gtgcttgcactgtacaacccggacatagtttgtttgcttgtgcatccctgacaaaataaataatataattaaactttgccttcattatcttatgttcgtgtcttccaacgttgtag

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: AT2G46480.1 (Arabidopsis thaliana), 5'ss of exon 3
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag
 ||||| ||||| |||||  | |||||||| || ||||| ||||| ||||||||  |||| ||||||||||| |||||||| ||  ||||||||||  |||| |   | |  |||   |      || |||  |||   ||| |   |  | |    |    |    |||    ||                               
GGAGAATTTGGAGAATCCAAAACTTTACCACTACGCTCTCTTCTCTGATAATGTACTGGCTGCATCAGTTGTTGTCAACTCCACAGTCATGAATGCACAGgtaatgatcaatccctagtaattgttgcaagaataagtgctttaaacttacaaggcctactgggtttatttggcag-------------------------------

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: Vv15s0048g01300.t01 (Vitis vinifera), 5'ss of exon 8
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgt----tagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcag
 ||||| |||||||||||  ||||||||||||||||||| ||||| |||||||| ||||| || |||||||| ||||||||||||||| ||||||| |||||    | ||| | |      ||| | ||| | |   | |  |  || |  | ||    | | ||    ||| ||| ||| |      | ||| | |  ||          
TGAGAATTTGGAAAATCCAAATCTTTACCATTATGCTCTCTTCTCTGATAATGTATTGGCTGCTTCAGTTGTTGTCAACTCAACCATCTTGAATGCCAAGgtgaagtggtggatttatttactttatactagcatctttaagtgatcttcttatcctagacttaaaacaccagtat-tagtatcccctaatttatctacat----------

upper sequence: GRMZM2G076276_T03 (Zea mays), 5'ss of exon 7
lower sequence: PP1S251_8V6.1 (Physcomitrella patens), 5'ss of exon 8
CGAGAACTTGGAAAATCCTGATCTTTACCATTATGCTCTTTTCTCAGATAATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcact--tttgatt--ttctttctataaattttcag
  | || |||||| |||||| | | | ||| |||||||||||||| || ||  ||||||||||| |||||||||| ||||| || || |  |||||||||||  |      ||   |||  | |   |||    ||| | | || | |    || |  |  || |     | |||| |||  ||| ||   || || | |   || |    
AAATAAATTGGAAGATCCTGCTTTGTTCCACTATGCTCTTTTCTCTGACAACATTTTGGCAGCAGCAGTTGTGGTGAACTCCACTATTACCAATGCGAAGgtatg------ccttttctaaatagcagaatcccaat-tttgcagtttacaaacgaacgt-tgtcttgaaaaataggactacttttatcagtttttgccacgtatatc---

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|101385706|gb|EB814901.1|EB814901
EST:     ATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAG                         GAGCCTGAAAAACATGTGTTTCACCTTGTTACTGACAAACTGACCTTTGGG
genomic: ATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaa ... aaattttcagGAGCCTGAAAAACATGTGTTTCACCTTGTTACTGACAAACTGAACTTTGGG
EST: gi|71429642|gb|DR810692.1|DR810692
EST:     ATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAG                         GAGCCTGAAAAACATGTGTTTCACCTTGTTACTGACAAACTGAACTTTGGG
genomic: ATGTTTTGGCAGCATCAGTTGTGGTCAACTCAACCATCATGAATGCGAAGgttagtgtaa ... aaattttcagGAGCCTGAAAAACATGTGTTTCACCTTGTTACTGACAAACTGAACTTTGGG