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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgggaccccaaattagcaattggcaagacagttatttatttgagatattgcactgatatcaaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA

Basic information

species Glycine max
transcript GLYMA15G15920.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g36170.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------gtaatgggaccccaaattagcaattggcaagacagt-tatttatttgagatattgcactgatatcaaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
                                       ||   ||   | | || ||||   ||    |    |  |    |||| | |  ||  | |||    | |    | ||   |||||||| ||||| |||  ||| ||||| |||||||||||||| ||||| ||| | || || |||||||| || ||||| ||| |||| || | ||||||||||
gtaaaatatgtagaaattcctcatgcgtttttgagaaaaaaaaagatatccactttgcaaaaagctgtgcttcatcctctcctgagttctatcatggttat----ttttttctttttgctgcagAGGCACTGACGAAAGGTCGAGGTCGAAAAGAATGCACATATATGTATCTCTGCTGAAGCAAATGGCACCAGAGCACCTTTTAGCTACGTCTGCCAAGTTA

upper sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G571844_T01 (Zea mays), 3'ss of exon 5
gtaatgggaccccaaat-----tagcaat--tggcaagacagttatttatttgagatattgcactgatatcaaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
||||    || | || |     |   | |  | |||||| || |  ||  ||   |  ||    |  | |   |    |||| || ||||||| || |||||||||    | ||||| || ||||||||||||||||| ||||| || ||||||||||| || ||||||||| |||| || |  |||||||||
gtaaaacaactcaaactgttcttcttagtccttgcaagagagatgcttcattcctagcttaattttttttatcacgctcattcttttttgcagTGGCACTGATGAAAGCACGAGGTCAAAGAGAATGCACATTTATGTCTCTTTGCTGAAACAAATGGCACCAGAGCATCTTTTAGCCACGTCGGCCAAGTTA

upper sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
gtaatgggaccccaaatt-agcaattggcaagacagttatttatttgagatattgcactgatat---caaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
|| |    |   || ||| ||  | | | || |||| ||   ||| || | ||   |   ||||    |    |   || |  ||| |||||||| ||||||| ||||||| ||||||||||||||||| ||||||| ||| || ||||||||||| || ||||| ||| |||| || ||||| ||| ||
gtcagtaaatttcagattcagtgactaggaaaacagctaaa-attggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA

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|193380823|gb|FK346106.1|FK346106
EST:     CATCGTGAGTCTCAAGGATCACGAAAGGAAAGCCAAATCTTTTCCATCAG                         AGGTACTGATGAAGAGTCAAGGTCTAAAAGAA
genomic: CATCGTGAGTCTCAAGGATCACGAAAGGAAAGCCAAATCTTTTCCATCAGgtaatgggac ... ttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAA
EST: gi|193350558|gb|FK316288.1|FK316288
EST:     CATCGTGAGTCTCAAGGATCACGAAAGGAAAGCCAAATCTTTTCCATCAG                         AGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTT
genomic: CATCGTGAGTCTCAAGGATCACGAAAGGAAAGCCAAATCTTTTCCATCAGgtaatgggac ... ttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagttatttatttgagatattgcactgatatcaaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
                       cactgat  putative branch site (score: 3)
                                          ttgttcttt  putative PPT
     tatttatttgagatat  TA-rich tract