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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctaattgctttattgtttctatttctaatcatcaaagacatggttaactttctaaccataaaaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT

Basic information

species Glycine max
transcript GLYMA11G08390.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G17790.1 (Arabidopsis thaliana), 3'ss of exon 7
gtctaattgctttattgtttctatttctaatca-tcaaagacatggttaactttctaaccataaaaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT
    || |  | |||  | |  |     |  || |   | || |   | | |  |||||||     ||||   ||   |||      |||        ||| ||||||| |||| ||||||| | || || |  ||| | || || |||||||||||||| || ||||| |||||||||||||| ||||| |||||  |  
-gtaaaatattatatcctgtaaacacacatacacttgcaaacttaacttattccctaacca-----aaaactaatgtttttctgatgatttct-----cagATTGTGAACTGCAGAGATGAGATTGCCCAATATTACCTAATAGACTGTATAATTCAAGTTTTTCCTGACGAGTATCACTTGCAGACTCTAGATGTACTTC

upper sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------gtctaattgctttattgtttctatttctaatcatcaaagacatggt---taactttctaaccataa----aaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT
                                               |||   ||  |||  |  || ||||| | ||  |  ||| | || |   |  ||||   |  | ||    || | || |   |||      || |  || | |  ||||||| ||||| ||||||||| | || || || || ||||||||||| |||||||||||||| ||||||||||| |||||||||||||||||    || |
gtctgatctatttagttgtctctcaacagtttttttttttttttttggtcattttcgttttcttcttttatttgtcatt-ttgaaggcgtgatatgtggcttttgcatgacaactataacataatggagcctacatggcattcgtctttgatagGTTGTCAATTGTAAAGATGAGATTGCCCAATTTTATTTGATGGATTGCATAATTCAAGTCTTTCCTGATGAGTACCACTTGCAAACTCTTGAGACATTAT

upper sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ27365 (Selaginella moellendorffii), 3'ss of exon 7
gtctaattgctttattgtttctatttctaatcatcaaagacatggttaactttctaaccataaaaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT
                                           |  |   | | |   | | | ||| |   | ||       | ||  | ||    |||||||| ||||||||||| ||  | || |||| ||| |||||||| ||||| || ||||| ||||| ||||||| |||| |||||||| | ||   | |  
-------------------------------------------gtatgtttctatgttcttgagaaatataaactc-------taaaagagcac---cagGTTGTTAATTGCAAAGACGAAATCGCACAGTACTATTTGATGGACTGTATCATCCAAGTGTTCCCCGATGAGTTTCACCTGCAAACTTTAGAATCTCTTC

upper sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ33136 (Selaginella moellendorffii), 3'ss of exon 7
gtctaattgctttattgtttctatttctaatcatcaaagacatggttaactttctaaccataaaaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT
                                            ||    || |      |  | ||| |  |         || ||  | ||    |||||||| ||||||||||| ||  | || |||| ||| |||||||| ||||| || ||||| ||||| ||||||| |||| |||||||| | ||   | |  
--------------------------------------------gtatgtttccatgttcttgagaaatataaac------tctaaaagagcac---cagGTTGTTAATTGCAAAGACGAAATCGCACAGTACTATTTGATGGACTGTATCATCCAAGTGTTCCCCGATGAGTTTCACCTGCAAACTTTAGAATCTCTTC

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|254342605|gb|GR858767.1|GR858767
EST:     TGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGGGAGCAG                         GTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTAT
genomic: TGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGG-AGCAGgtctaattgc ... tcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTAT
EST: gi|207797522|gb|GD769920.1|GD769920
EST:     TTGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGGAGCAG                         GTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATA
genomic: TTGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGGAGCAGgtctaattgc ... tcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATA
EST: gi|207803818|gb|GD772231.1|GD772231
EST:     TTGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGGAGCAG                         GTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATA
genomic: TTGACCTAGATATGTACAAAGATGTTGTGCTTCCCAGAGTACTGGAGCAGgtctaattgc ... tcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaactttctaaccataaaaaaaaacgattccttttcctcaattatcatgggcagGTTGTGAATTGCAAAGATGAGTTAGCTCAGTTCTACTTGATGGATTGTATAATTCAAGTCTTCCCTGATGAGTATCACTTGCAAACTCTTGATGTTTTGT
      ttctaac  putative branch site (score: 1)
         taaccataaaaaaaaa  TA-rich tract