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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta

Basic information

species Glycine max
transcript GLYMA17G37820.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 |||||| || || |||||  | || ||||| || |||||||| || |||||||| |||||||| || ||||| || ||| | || |||||||||||||||||| |   || | ||  ||| | | |   ||   |||   ||||  ||    || | |       | |       |    |   |  ||    |        |                                              
-GTTCCAGGCTGAGGTGTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGACATTTTCCTGAGGGAGCTCATCTCCAATGCTTCTGATgtatgtagttgtattgcattttgactcccttt--ttagggcctat-tcagaacacaggaaaaggaaaaacacaggataggaaaaacgtaggaatatgaaagga----------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G399073_T03 (Zea mays), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgtttttttt--ttattgttatttatttgagttaaaacctacatctattca-tatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 |||||| || || |||||  | || ||||| || |||||||| || |||||||| ||||||||||||||||| || ||| | || |||||||| ||||||||| |  ||  || |      |||  ||  | ||  ||             ||| | | || |  | | ||| |    |                                                                         
-GTTCCAGGCTGAGGTGTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCCAATGCCTCTGATgtatgtattgcttctgacccctgtgtttattctgcattgtggatggtcgaaattaactgtggtgttctgcatgtctgtag------------------------------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G141931_T01 (Zea mays), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgtttttttt--ttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 ||||||||| || || ||  | || ||||| || |||||||| || |||||||| ||||||||||||||||| || ||| | || || ||||| ||||||||| |  ||   | |      |||  ||  | ||  ||             ||| |   | |  | | ||| |    |                                                                         
-GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtag------------------------------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G022909_T01 (Zea mays), 5'ss of exon 4
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 ||||||||| || || ||  | || ||||| || |||||||| || |||||||| ||||||||||||||||| || ||| | || || ||||| ||||||||| |   |   |  | |    | | | | |          || |||   |    ||||| |     |  | |    || |    | |  |                                                          
-GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtactacatactgacccctgtgtttgt---------tctgcat---tgtggatgctcgaaattaactgggtgttctacatgtctgtag---------------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagc-gttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 ||||||||| || || || ||||||||||| ||||| ||||| ||||| |||||||||||||| || ||| | ||||||||||| ||||||||||||||||||||| | ||  | |  |||||  |||| |    ||      ||| ||  |  ||| |     | | |     |   ||  ||  |    |||||||                                                    
-GTTCCAAGCTGAGGTTTCTCGGCTTATGGACATTATTATCAACTCTCTATACAGTAACAAGGACATTTTCTTAAGAGAGTTGATCTCCAATGCTTCTGATgtaagcagcttcgtgtacattgt--tttagtgagtttttgggatacctcgttaaataggggaactaata-----agtgtctgtgt-tggtgattttcag---------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgttttttt-tttattgttatttatttgagtt--aaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 ||| || || || ||||| ||||| |||||||| || ||||| ||||| || || ||||| || || ||| | || |||||||| ||||||||||||||||||||  || |||| ||| ||  ||   | ||   ||   ||      |  || |  ||    || ||  ||||                                                                              
-GTTTCAGGCTGAGGTGTCTCGGCTCATGGATATCATTATCAACTCTCTTTATAGCAACAAAGACATTTTCTTAAGGGAGTTGATCTCCAATGCTTCTGATgtaagtattattttgtttgtttctaggaactttctttctgaagttgttacttaatggtaattctgcttg-atttcag---------------------------------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S126_38V6.1 (Physcomitrella patens), 5'ss of exon 3
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttaca-ttttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
 ||||||||| ||||| ||| || | |||||||| |||||| | ||| | || || ||||| || ||||||||  | || ||||| ||||||||||||||||||||  |     |||    |  |   | |    |   ||     |  || | ||||   |  | ||| ||||   ||       |||||  | |   |                                                   
-GTTCCAAGCTGAAGTCTCAAGGTTGATGGATATCATCATCCACTCTTTGTATAGCAACAAAGACATCTTCCTTCGCGAATTGATCTCCAATGCTTCTGATgtaagt-tgcaaatttctccgcaagccaatgacttctcaattcttaattaattatatatctcatcacagttttattaacttccaaatttatctatcggtgg-------------------------------------------------

upper sequence: GLYMA17G37820.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S8_67V6.1 (Physcomitrella patens), 5'ss of exon 4
AGTTCCAAGCGGAAGTGTCACGGCTTATGGATATTATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaag-cgttttttttttattgttatttatttgagtt-----aaaacctacatctattcata-tgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattcta
  ||||| || || || ||| |||| |||||||| |||||||| || || ||||| ||||||||||| || || || ||  || | |||||||| |||||||||||   | |    || ||  || ||  | | || |     | || |   |   | ||  | || ||||    |||| |        || ||| |  | |  |  |                                                 
-ATTCCAGGCAGAGGTTTCAAGGCTGATGGATATCATCATCAACTCCCTGTACAGCAACAAGGATATTTTTCTGAGGGAACTGGTGTCCAATGCCTCTGATgtaagatatctcgccttcataattgttcttctaaggtttctaagaatcaggagtcactcccagtggttgtcgg-atttcggt------tgtattaatttctctactc-------------------------------------------------

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|298170585|gb|HO019209.1|HO019209
EST:     TACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGA                         TGCTTTGGACAAGATTAGGTTCCTTTCCCTCACGGATAAGGACGTTTTGGG
genomic: TACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAtgtaagcgtt ... ttgcattctaGGCTTTGGACAAGATTAGGTTCCTTTCCCTCACGGATAAGGACGTTTTGGG