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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatacatttagatattatctttggctcatggtatttgtcattaatacaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATTGGGGAATATGGGCGGATGAGTAAG

Basic information

species Glycine max
transcript GLYMA19G30100.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 4
gttaatacatttagatattatctttggctcatggtatttgtcattaatacaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATTGGGGAATATGGGCGGATGAGTAAG
     | || ||   |    | |     | |   | ||    |  || | | | || | | ||  ||   | |   |   |   ||||||||||||||||||||||| || |||||||| || || |  ||||| || ||||| ||||| |||||||| |||
----gttcagtttcttgccttatccaaattagaattttatgtaccaaaagattgttctttataccttgc-tattctttgctgcgcagAGATTATGGTTTAAGACAAACCTGAAGCTTTGCAAAATTTGGTTTGACATGGGGGAGTATGGCCGGATGAGCAAG

upper sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 4
gttaatacatttagatattatctttggctcatggtatttgtcattaatacaatcttatgtttattttttatgtcactcatttta----cagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATTGGGGAATATGGGCGGATGAGTAAG
     |||   |   | || ||||   ||  |  |  |  ||| |  |  |   |  |  || |    ||| | ||||  || |    |||||||| |||||||||||||||||||||||||| ||||| |  || || || || ||||||||||| |||||||||
---gttacgggttttttttgtcttaaactt-tattgctcttcacttgttgaggatgttagttttaaaatatattactctcttgatgggcagAGATTGTGGTTTAAGACAAATCTTAAGCTTTGCAAGATTTGGTTCGACATGGGTGAATATGGGCGAATGAGTAAG
















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|192319385|gb|FK009927.1|FK009927
EST:     AGGAATTCTATCAGACAACACTGCAAGCCCTTGAAGAAGCAAAGAATGAG                         AGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATT
genomic: AGGAATTCTATCAGACAACACTGCAAGCCCTTGAAGAAGCAAAGAATGAGgttaatacat ... cattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtatttgtcattaatacaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGATATTGGGGAATATGGGCGGATGAGTAAG
         cattaat  putative branch site (score: 3)
                                           ctcatttt  putative PPT
     ttgtcattaatacaat  TA-rich tract