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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtctctttggttttggtcttgaaattcagtattctgaattatatttacaggctaaaatactttgcaagatctttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG

Basic information

species Glycine max
transcript GLYMA02G10790.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 3'ss of exon 6
gtgtctctttggtt---ttggtcttgaaattcagtattctga-attatatttacaggctaaaatactttgcaagatc--tttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG
|||   |   | ||       | ||   |    || |||||    | | | | |     ||| ||  |||| |  |   | |||||||||||||| | ||||| |  ||||||||||| || ||||||||||| || || ||||||||||| || || || ||||||
gtgggccaacgcttaaccaaatattattaactggttttctgctgctgtttattcccagcaaactaacttgccaactgcatctgcagGAATTGTCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCTTCAGTTATTATGGGAATGGCCCCGGTCTTGGGAAAG

upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 6
gtgtctctttggttttggtcttgaaattcagtattctgaattatatttacaggctaaaatactttg---caag-atctttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG
  ||              | |||||   || |    ||   | | | | | |  | || ||  |     ||||    | | |||||||||||| | ||||| |  ||||||||||| || ||||| || || ||||| |||||||||||||| ||  | ||||||
--gtgggggcaaagcaattattgaacaccatttcgttgctatttttcttctgagtgaattaactcatgccaagtgcatctacagGAATTGTCATCAGATTCATCCCAGCATGTTCGTTCAGCTTTAGCCTCAGTGATTATGGGAATGGCTCCTGTACTGGGAAAG

upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------gtgtctctttggttttggtcttgaaattcag-tattctgaattatatttacaggctaaaatactttgcaagatc--tttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG
                                           || ||  |||| |   |  |||   ||| || || | || |   | || |        |||| || |  |  ||  |||| |||||||||||   ||||| |  |||||||| |||||||| |||||||| ||  |||||||||||||||| || |||||||||
gtgctcacgtttattaaaagagtgtttctctgtattatataatgtctccttttgttcacgaacttactattgagctaatgtgcacc-tgttgagctttctcaatatttggtgatgtcattttgtagGAATTGTCATTAGATTCGTCCCAGCATGTCCGCTCTGCCTTGGCTTCAGTTTTAATGGGAATGGCTCCCGTCTTAGGAAAG

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|7146818|gb|AW508740.1|AW508740
EST:     GGATATTAAATCCAGATCTTTCAATTCAGCATATTCTTCCTTGCGTGAAG                         GAATTGTCGACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTG
genomic: GGATATTAAATCCAGATCTTTCAATTCAGCATATTCTTCCTTGCGTGAAGgtgtctcttt ... atctttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcagtattctgaattatatttacaggctaaaatactttgcaagatctttgcagGAATTGTCAACGGATTCTTTGCAGCATGTTCGCTCTGCTTTGGCTTCCGTGATAATGGGAATGGCTCCAGTGTTAGGAAAG
                          ggctaaa  putative branch site (score: 3)
                                              tctttgc  putative PPT
      tattctgaattatatt  TA-rich tract