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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcaagttatccatgtctcaggctgatgcaactatcgcatttcatctgtgaaagtgagaggccttttaattgtctgactctgttcatgtatgtgaatcactgaatcatctcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAATTTAGGCAGGAATATGAAATGCGTAGAATGAAACAG

Basic information

species Glycine max
transcript GLYMA13G20220.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g02130.t01 (Vitis vinifera), 3'ss of exon 3
---------------------gtaatcaagttatccatgtctcaggctgatgcaactatcgcatt-tcatctgtgaaagtgagaggc---cttttaattgtctgactctgttcatgtatgtgaatcactgaatcatctcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAATTTAGGCAGGAATATGAAATGCGTAGAATGAAACAG
                     ||| || |  |||     | | || || |||  | | | |  |  | || | |  || |||| ||    |||| ||||        | |||||  ||| ||  ||||         | ||  |||||||| ||||||||   ||||||||||||||||| |||| | || ||||| || ||||| || ||||||||||| | |||||| || 
gtgactgttcatgtagagattgta-tctatgtattggattttgagtcttatggtaatgtggtttcattatttttctaaatgagtggaatgctttcaattaatgcttgcagttcacttatatgtttcaca--------tgaatgatagATGGACGATTTGACAGTGAATACTTCCAACAAACTGAAGAGTCTAGTCAGTTCAGGCAAGAGTATGAAATGCGGAAAATGAACCAA
















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|308222721|gb|HO760631.1|HO760631
EST:     TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAG                         ATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAAT
genomic: TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAGgtaatcaagt ... tcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAAT
EST: gi|27424308|gb|CA935828.1|CA935828
EST:     TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAG                         ATGGGCGATTTGATGATGAATACTTCCAACAA
genomic: TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAGgtaatcaagt ... tcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAA
EST: gi|13790226|gb|BG652817.1|BG652817
EST:     TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAG                         ATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAAT
genomic: TGGAGGCTGGGCAGCTTCTGCCTCCCGTCCTGAAATTAAGTTTGATTCAGgtaatcaagt ... tcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaattgtctgactctgttcatgtatgtgaatcactgaatcatctcaaatatagATGGGCGATTTGATGATGAATACTTCCAACAAAGTGAACAATCAAGTCAATTTAGGCAGGAATATGAAATGCGTAGAATGAAACAG
       gtctgac  putative branch site (score: 3)
                                        tcatctc  putative PPT
                                             tcaaatata  TA-rich tract