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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgtagTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG

Basic information

species Glycine max
transcript GLYMA04G16340.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g31190.1 (Oryza sativa), 3'ss of exon 3
gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgtagTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
        || | |   || || | |||      | |||    | |              || |  |||  | || ||||||  |     | | | |     |||||||| ||||||||||| || ||||||||||| ||  | ||||| ||||| || || ||||||   ||||||||||||||||||||||||||| |||| |
-------gtacttttgcaatatataaacaatagtgcataccctttac-------------ttactttgtgatcactatgttaaccttgcttcaatgg---cctagTTGGACATCATGGACAGGGGCACTGATGCTCGTAACTTTTTACTGGGAAATGTGATCCCCCTCAAGCTTGGTTATGTAGGTGTTGTAAATCGTAGCCAAG

upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 3
gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgtagTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
|| |  | |  ||| || | |  ||  ||   |  | ||  |||||   |||  || ||  | | || |||| || || |     | ||    | ||  ||  |||||||||| ||||||||||||||||||||||||||||   | || ||||||   ||||| || |||||||| || || || |||||||||||| | || |
gtgctattt-ctctcctcataagtttgctt-tagatttagctgtga---tggc-aaactact-ctat-ttctcacgat-tgctctattttctctctg--attcagTTGGATATTATGGACAGAGGTACTGATGCTCGGAATCACCTTCTGGGAAAAACAATTCCTCTTCGACTTGGATACGTGGGAGTTGTAAATCGTAGTCAAG

upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 3
gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctg-acaatgttaggcac-ttgtaatttggaatgtagTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
     ||  ||  | | |         | ||||  | | ||| |   ||      ||  ||  |  | ||       || |     |  || | ||   |  |  |||||||||| ||||||| ||||||||||||||| || ||  | || ||||| ||| |||| || |||||||| || || || |||||||||||||||||||
-----gtgcatattcccagtc------cagacatttgt-tttatttcatcaccataggcgtccctgtctttcatgtgatttactatatgttattatcatgttttcagTTGGATATTATGGACAAAGGTACTGATGCTCGAAAACTCCTTCTTGGAAATGTTGTTCCTCTTCGACTTGGATACGTGGGAGTTGTAAATCGTTGCCAGG

upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 3
gttcggtatattctactaacattttaa-ctgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgta--atttggaatgt-agTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
|| |  |||||     | |  ||||   || |    |   | ||  | ||| |  ||||| ||  ||| |||| |  | ||| ||||  |     | ||| ||| | ||||||| || |||||||||||||| ||||| || ||| | || || |||||||| |||||||| |||||||||||  |||||||||| |||||| | || |
gtgctatatatcaacttgatttttttgtcttatgaatgcctgtgcaacatttgc-aagcttttatcattttctaatgaggtttggcaaataccccacttgtaatttcagTTGGACATTATGGACAGAGGTACCGATGCCCGCAATTTATTGCTTGGAAAAGTGATTCCCCTTCGACTTGGTTACATAGGTGTTGTGAATCGTAGTCAAG

upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37641 (Selaginella moellendorffii), 3'ss of exon 3
gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgt-agTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
                                          ||||||||  || |   ||    |     |      |||   ||   ||| ||     ||| || | ||||||||||||||||| ||||||||||| ||  |  | || || |  ||||||||| | || ||||||||  | ||||| || |||||| | || |
------------------------------------------gtgaaattcttttaaa-gtcaaaacaagttattggagtttaaca---gtagttcttgctgtcagCTTGATATCATGGACAGAGGCACTGATGCTCGCAACTTCCTTCTTGGGAGTGTTATTCCCTTACGCCTTGGTTACATTGGTGTCGTTAATCGTAGTCAAG

upper sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ15047 (Selaginella moellendorffii), 3'ss of exon 3
gttcggtatattctactaacattttaactgacacgtatatttgtgaaattggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgt-agTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
                                          ||||| ||  || |   ||    |     |      |||   ||   ||| ||     ||| || | ||||||||||||||||| ||||||||||| ||  |  | || || |  ||||||||| | || ||||||||  | ||||| || |||||| | || |
------------------------------------------gtgaatttcttttaaa-gtcaaaacaagttattggagtttaaca---gtagttcttgctgtcagCTTGATATCATGGACAGAGGCACTGATGCTCGCAACTTCCTTCTTGGGAGTGTTATTCCCTTACGCCTTGGTTACATTGGTGTCGTTAATCGTAGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttaagctgttgccatgttctgacaatgttaggcacttgtaatttggaatgtagTTGGATATCATGGACAGAGGTACTGATGCTCGGAATCTGTTACTAGGAAAAGTTATTCCCCTCCGACTTGGTTATGTAGGTGTTGTAAATCGTTGCCAGG
                  ttctgac  putative branch site (score: 2)
                                     ttgtaattt  TA-rich tract