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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag

Basic information

species Glycine max
transcript GLYMA13G34560.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 6
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag
 | || || || ||  | || || || || || || ||||| || || ||||||||||| ||||||||||||||||||||||||||||| || || ||||||||  ||   || | | || | |        |||      | | |  ||| |  |  ||| |    || |     ||| || ||    |    |||||
AGGGTTGATACTGCCCTTAAGAACATTGGCATAAACGAGCGAGTGCCCTATAATGCTCCTCTTATTCAATTTTCTTCTTGGATGGGTGGAGACCGTGATGgtat--gttacatctatcatatca--------tgt------ttgcaacatagttaattaattgtgaaat-tatggttttaatattgatgtggactacag

upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 4
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttg---tgattttaaaaaatagtg-tatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag----------------------------------------------------
||||| || || || ||||| || || || ||  | |||||||||||||| |||||||| |||||||| || || ||||||||||| || ||||| ||||||   |  | ||| |    || | ||      |||   |||    |   | ||       || |  ||||  | |  | || || | ||  ||| |  |||                                                      
CGTGTGGATACTGCATTGAAGAACATCGGTATCGACGAGCGTGTTCCTTACAATGCTCCTCTTATTCAGTTCTCGTCTTGGATGGGAGGAGATCGTGATGgtgagaaacatatctattttgttgttggttcttagcactatgccttataaataattacagcacaatgaatcctctttagatgttgtctttaaat-tactaccacttaggagataccatgtctgtatgcactctaaatttcaaatgacctttacag

upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 4
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttgtgattttaaaaaatagtgtatatta-tcgtagtatactggacaaatg-gaatgatatgcaaattttatgttccaatatgatacag
||| | ||||| || ||||| || || || ||| | |||||||||||||||||||| || || ||||| || |||||||||||||| || || || ||||||||       |    ||  |||  |     || ||  | | |  | ||  | |  | || |  |     |   | |||||                    
CGTCTGGACACTGCCTTGAAGAACATCGGAATTGATGAGCGTGTTCCTTATAATGCACCTCTCATTCAGTTCTCTTCTTGGATGGGAGGAGACCGTGATGgtatgca----aaggatggcttttgacttctgtatagttcagttcttgtgcatttaataattttgtgcattgcaccaatttag------------------

upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 3
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag-----------------------------------------------------------------------------------
|| || || || || ||||| || || |||||||| |||||||||||||| ||||| || ||||||||||| |||||||||||||| || ||||| ||||||    | |  || | |   | |      | || | | | || | | |||| |  | |    | ||     |||  | ||||  ||     |  ||  |                                                                                   
CGGGTTGATACTGCATTGAAGAACATTGGGATTAACGAGCGTGTTCCTTACAATGCACCTCTTATTCAATTCTCTTCTTGGATGGGGGGAGATCGTGATGgtgagtgacacatctctacatatttgtctt-gtct-tctcatggcattatattaaatatgcagtatttgcagcacctattattatctttgtttctagtggttaggaagatgattattcattgtgcctgtgtctgcggtttgcacctctgtcctattctaaagcaatgtctctacaaatgcag

upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 4
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtat-tagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag------------------
 | || ||||| ||| | || || || || || || |||||  | || |||||||| ||  | ||||| ||||||||||||||||||||||| || |||||||  |||  || | | |   ||      ||||| ||| | || ||  |  |     ||| ||   |  |   |||     | || | ||||| |  | |                  
AGGGTTGACACTGCTCTTAAGAACATTGGCATAAATGAGCGGTTGCCATATAATGCCCCTATCATTCAGTTTTCTTCTTGGATGGGTGGTGACCGTGATGgtacatagcattctctctcccttatttggatagtatatttgat-gtgctgaatcatgcaactg---tagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacag

upper sequence: GLYMA13G34560.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 5'ss of exon 4
CGTGTAGACACAGCTTTGAACAATATAGGGATTAAAGAGCGTGTTCCTTATAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtcttatttgtgattttaaaaa-atagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacag
||||| |||||||||||||| || ||||| || || || ||||||||||| ||||| || || ||||| || ||||||||||||||||||||||| |||||||| |||||| ||    |    | | | ||      |||| || |    ||   |          | || |   |||          |  |  | |  |
CGTGTTGACACAGCTTTGAAAAACATAGGCATAAATGAACGTGTTCCTTACAATGCACCTCTAATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGATGgtatgagtcttcttcacaaacaaatatatattcaacttattttcttgaattataagcattgcttgttaatttaggaatggaggaaattagcaaaacattg

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|18730061|gb|BM525657.1|BM525657
EST:     TAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGGGGTGATCGCGATG                         GTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTA
genomic: TAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtct ... tatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTA