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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag

Basic information

species Zea mays
transcript GRMZM2G423861_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgt--attctaaagtttcg--aggcaatagttcataatgcatctgatcctgttatatcatc-tataactgatagaataaccatgttttttag
| | ||||| |||||||||||||| ||||||||||| |||||||||||||||||| |||| |||||||| |||||||||||||| |||||||| ||||||||   || ||||  |     ||| |||| |||||| |   | |   | ||| | || | | | | |    |||                  
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggc-tgtgaaataaccatctgatatttag------------------

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA01G35950.1 (Glycine max), 5'ss of exon 12
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaat-----------agttcataat----gcatctgatcctgtt-atatcatctataactgatagaataaccatgtttt-ttag--------------------
 || || ||||| ||||||||||| |||||||||||||| || || ||||||||||||||||| ||||| ||||| || ||||| ||||||||||||||||||||   | | |  | | || |           | ||| ||||    || | ||  | | || ||||| ||  ||  |  | || | |   | | || ||||                    
GTTGAGGGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGAGTTGCAGGTGTTCTTCACATATTTCAGTTTGAAACAAAGCAGgtattagcatgctcagggacattctactctaccaatttcttaatttcggcctttggacttattcatatcttcattactt--tggagttattttatattattagtattttatcattctttgaag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 15
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag
 || |||||||| ||||||||||| |||||||||||||| || || ||||||||||||||||| ||||| || || || || || |||||||| ||||||||||  ||    || |  |   | |  || | |   | ||    | || | |||      |||| ||   || |  |   || |||
GTTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTCTTTTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataata--cctttgttgatgttgcacaaactttctttggaattattttgtcac-----actggtattttatctcttggttgtag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA09G32740.1 (Glycine max), 5'ss of exon 12
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagttcataatgcatctgatcctgttatatcatcta---taactgatagaataaccatgttttttag
 || |||||||| ||||||||||| ||||| |||||||| || |||||||||||||||||||| ||||| || || || || || |||||||| ||||||||||  ||   |||   |   ||    || ||  |   || | || |   || || |    | |||||||   || | || | || |||
GTTGAGAGACATAATGCAATTTGGAAGCAGTAATACTGCAGTCTTCTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataatacc-tttgttgatgatgtcacacaa-acccttgtttctttggaattattttgcctcactgatattttatctatttgttgtag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA11G09480.1 (Glycine max), 5'ss of exon 12
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaat-----------agttcataat----gcatctgatcctg--ttatatcatctataactgatagaataaccatgttttttag---------------------
||| |||||||| ||||||||||| |||||||||||||| || || ||||||||||| ||||| ||||| ||||| || || || ||||||||||||||||||||   | |||  | | || |           ||||| ||||     | | ||  | ||  | ||||| ||  ||  |  |  | | |   | |||| | |                     
ATTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGGGTTGCAGGTGTTCTTCACATATTCCAGTTTGAAACAAAGCAGgtattggcatgttcagggacactgtactcttcctagttcttaatttcgacctttggacttgactcatatcttcattactt--tgaagttattttattttattggtattttatcattctttgaag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaa--agtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag
| || | ||||||||||||||||| ||||| || |||||||| || || |||||| |||| |||||||| ||||| || ||||| || || ||||| ||||| |    |  | | |    | |  | |  || ||| | |   ||||  |||   || |  || |     ||     |||||| |   
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaagcaattcct--tatgagatattcaatttgggtaacttgtatgtttgtag-

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattcta------aagtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag--------------------------------------------
| ||||||| || ||||||||||||||||||||||||||||| || ||||| ||| ||||||| |||||||| || || || || |||||||| || |||||  |  |       |||||| |        |  ||||    | |     | |  | || | | |   | ||  | |  || |||||                                                 
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtatt--ccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S199_47V6.1 (Physcomitrella patens), 5'ss of exon 13
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagt----tcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag--------------------
  |  | || ||||||||||| || || || |||||||| ||||| ||||| ||||| |||||||| || |||||||| || || || |||||||||||||||||   || |   | |  | | ||    |||||    | ||| | | ||  | | ||   | | | |||   |    || | |  |                      
GCTGCGTGATATCATGCAATTCGGCAGTAGTAATACTGCCGTTTTTTTTAAGATGCGTGTTGCTGGAGTTCTTCATATTTTCCAGTTCGAAACAAAGCAGgtatttataaatcaagtgtaagtcgtacggtcatatccaagctgctgcggtggttttatgagtcatttataacttggtaatttatgatgtgtgggattggcttcaaacag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 5'ss of exon 12
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagttcataatgcatctgatcctgt-tatatcatctataactgatagaataaccatgttttttag----------------
 ||  |||| |||||||| ||||| || || || |||||||| || |||||||||||||| ||||| ||||| ||||| ||||| || ||||||||||||||||     | | |  | |     | ||||| |  | ||  | | || |  ||    | | | | ||     ||| || |  | ||                 
GTTGCGAGATATCATGCAGTTTGGCAGTAGTAACACTGCTGTATTTTTTAAAATGCGAGTCGCTGGAGTCCTACATATTTTTCAGTTCGAAACAAAGCAGgtatct---attcttaatgtctatggtcatactcaagcttctgcggtgtggatttaattttagttatgagtcaacaatttaatgtaaaatccctttgaaacag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S364_50V6.1 (Physcomitrella patens), 5'ss of exon 13
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaagtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag----
| |  | ||||| |||||||||||||||||||| || || || || || |||||||| || || ||||| || ||||| ||||| ||||| || |||||||| |  |   ||  | ||    |  ||  || |    |  ||||   ||||| || |   |    ||   |     ||| || |      
ACTGCGCGACATTATGCAATTTGGTAGCAGCAACACAGCCGTCTTTTTCAAAATGCGTGTAGCGGGTGTACTGCATATTTTTCAGTTTGAGACTAAGCAGgt-tattttcgtacctagatcttgctttgtactt--gcaaatccc--tatattattttggagatttatttttggtttgtcttgtgagcag

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: EFJ30174 (Selaginella moellendorffii), 5'ss of exon 11
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaag--tttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag
  | |||||||||||||||||||| || |||||||| || || || ||||||||||| || || || ||  | || || ||||| |||||||| || ||||| |  |   |  ||||   | | |  |||   |    ||||   | |                                        
GCTGAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgtgtctttgtggctttccgtgtagttcttctctaaatttctgtcgcag----------------------------------------

upper sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
lower sequence: EFJ06058 (Selaginella moellendorffii), 5'ss of exon 11
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaag--tttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag
  | |||||||||||||||||||| || |||||||| || || || ||||||||||| || || || ||  | || || ||||| |||||||| || ||||| || |   |  ||||   | | |  |||   |    ||||   | |                                        
GCTTAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgtgtttttgtggctttccgtgtagttcttctctaaatttctgtcgcag----------------------------------------

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|211028431|gb|FL442904.1|FL442904
EST:     AATGCGAGTGGCTGGTGTCCTTCCATATCTTTCAATTTGAAACAAAGCAGG                         GGCGAGGGAAATATGTGTAGCAC-TCAAACACCATATAAATGACGTCATG
genomic: AATGCGAGTTGCTGGTGTCCTT-CATATCTTTCAATTTGAAACAAAGCA-Ggtattctaaa ... tgttttttagGGCGA-GGAAATATGTGTAGCACTTCAAACA-CATATAAATGACGTCATG
EST: gi|18383721|gb|BM416921.1|BM416921
EST:     AAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAG                         GGCGAGGAAATATGTGTAGCACTTCAAACACATATAAATGACGTCATGCTC
genomic: AAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaa ... tgttttttagGGCGAGGAAATATGTGTAGCACTTCAAACACATATAAATGACGTCATGCTC
EST: gi|18649769|gb|BM498588.1|BM498588
EST:     AAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAG                         GGCGAGGAAATATGTGTAGCACTTCAAACACATATAAATGACGTCATGCTC
genomic: AAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaaa ... tgttttttagGGCGAGGAAATATGTGTAGCACTTCAAACACATATAAATGACGTCATGCTC