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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatacatttatacattatctttggctcatggtaattgtcataattcaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATTGGGGAATATGGACGGATGAGTAAG

Basic information

species Glycine max
transcript GLYMA03G00670.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G00670.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 4
gttaatacatttatacattatctttggctcatggtaat-tgtcataattcaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATTGGGGAATATGGACGGATGAGTAAG
     | || ||        | |     | |   |  | |||   ||   | | || | | ||  ||   | |   |   |   ||||||||||||||||||||||| || |||||||| || || |  |||||||| ||||| ||||| |||||||| |||
----gttcagtttcttgccttatccaaattagaattttatgtaccaaaagattgttctttataccttgc-tattctttgctgcgcagAGATTATGGTTTAAGACAAACCTGAAGCTTTGCAAAATTTGGTTTGACATGGGGGAGTATGGCCGGATGAGCAAG

upper sequence: GLYMA03G00670.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 4
gttaatacatttatacattatctttggctcatggtaattgtca-taattcaatcttatgtttattttttatgtcactcatttta----cagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATTGGGGAATATGGACGGATGAGTAAG
     |||   | |   || ||||   ||  |  |  |  ||| |  || |   |  |  || |    ||| | ||||  || |    |||||||| |||||||||||||||||||||||||| ||||| |  || ||||| || |||||||| || |||||||||
---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|298189914|gb|HO038317.1|HO038317
EST:     AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAG                         AGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGA
genomic: AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAGgttaatacat ... cattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGA
EST: gi|151398925|gb|EV268796.1|EV268796
EST:     AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAG                         AGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATT
genomic: AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAGgttaatacat ... cattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATT
EST: gi|298189905|gb|HO038308.1|HO038308
EST:     AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAG                         AGATTATGGTTTAAGACAAATC
genomic: AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAGgttaatacat ... cattttacagAGATTATGGTTTAAGACAAATC
EST: gi|151398223|gb|EV268101.1|EV268101
EST:     AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAG                         AGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATC
genomic: AGGAATTCTATCAGACAACTCTGAAAGCCCTTGAAGAAGCAAAGAATGAGgttaatacat ... cattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtaattgtcataattcaatcttatgtttattttttatgtcactcattttacagAGATTATGGTTTAAGACAAATCTTAAGCTTTGTAAGATCTTCTTTGACATTGGGGAATATGGACGGATGAGTAAG
                                           ctcatttt  CT-rich tract
     attgtcataattcaat  TA-rich tract