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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttttcagaagtatatgtttcatctctttctaatttcaatttttacacaaaatgtccatttttgtttacatttttttttctttttatatttttaaagGGGATGGGATCAGTTTGAAACAAATGAGGCATTGTTTGGTGTGAAAAGCACATTCAATGAGGAACTTTATACAACAAAGCTTGAAAAAGGGCCTCAGACA

Basic information

species Glycine max
transcript GLYMA13G42230.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42230.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g27950.1 (Oryza sativa), 3'ss of exon 5
ttttttttcagaagtatatgtttcatctctttctaatttcaatttttacacaaaatgtccatttt---tgtttacatttttttttcttttta-tatttttaaagGGGATGGGATCAGTTTGAAACAAATGAGGCATTGTTTGGTGTGAAAAGCACATTCAATGAGGAACTTTATACAACAAAGCTTGAAAAAGGGCCTCAGACA
    |  |  ||| | | || ||  |    | |||  | |  |    | |       |  ||| |   ||||  |||   | ||  |  ||| |||  |   ||| | ||||| ||||||||||||||||  || |||||||| || || || || |||||||| ||||||||||| |||||||| || | ||| ||||| |  
---atccttggaaatttttgctt-gtaaagtactagctcctctggggataatgttcatatattatacatgttagcatgactattaataattaatatggtgctagGAGCTGGGACCAGTTTGAAACAAATGCAGCTTTGTTTGGGGTAAAGAGTACTTTCAATGAAGAACTTTATACCACAAAGCTAGAGAGAGGTCCTCACATG

upper sequence: GLYMA13G42230.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G056773_T01 (Zea mays), 3'ss of exon 5
--ttttttttcagaagtatatgtttcatctctttctaatttcaatttttacacaaaatgtccatttttgtttacatttttttttctttttatatttttaaagGGGATGGGATCAGTTTGAAACAAATGAGGCATTGTTTGGTGTGAAAAGCACATTCAATGAGGAACTTTATACAACAAAGCTTGAAAAAGGGCCTCAGACA
  |   |  |   |   |||    | |   ||     || ||     |||       ||    |    |  | |||  | |   |  |  |||  |||  ||| | ||||||||||| ||||| ||||  || |||||||| || || || ||||||||||| ||| ||||||| ||||||||||| | ||| ||||| |  
cctaagtgcttgcatcgatagaact-actgctgaaacatctctgacattatttgctttggttgtacacggctgcatgatataa-caatccatagatttgcagGAGCTGGGATCAGTTCGAAACCAATGCAGCCTTGTTTGGGGTAAAGAGTACATTCAATGAAGAAATTTATACCACAAAGCTTGAGAGAGGTCCTCATATG

upper sequence: GLYMA13G42230.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G829738_T01 (Zea mays), 3'ss of exon 5
ttttttttcagaagtatatgtttcatctctttc--taatttcaatttttacacaaaatgtccatttttgtttacattttttt-ttctttttatatttttaaagGGGATGGGATCAGTTTGAAACAAATGAGGCATTGTTTGGTGTGAAAAGCACATTCAATGAGGAACTTTATACAACAAAGCTTGAAAAAGGGCCTCAGACA
 |   |   |  ||| | ||   |||||    |  || || |  |  ||  ||||    | |||  |  ||   |  | ||  | | ||  |||  |||  ||| | ||||| ||||||||||| ||||  ||||| ||||| || || || || |||||||| ||| ||||||| ||||||||||| | ||| ||||| |  
-tcaatggaaatagtgt-tggaacatctgaaacattatttcctttggttgtacaaggc-ttcatgataattagtaaatattaatccattccatacatttgcagGAGCTGGGACCAGTTTGAAACCAATGCAGCATTATTTGGGGTAAAGAGTACTTTCAATGAAGAAATTTATACCACAAAGCTTGAGAGAGGTCCTCACATG

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|192298181|gb|FG991686.1|FG991686
EST:     GATCCACA-TGCCCTGA-CTGGAAAACATATTTGACG-CCATTG-AATAG                         GGGATGGGATCAGTTTGAA
genomic: GATCCACAATGCCCTGAACTGGAAAACATATTTGACGGCCATTGGAATAGgttgctttcc ... atttttaaagGGGATGGGATCAGTTTGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacacaaaatgtccatttttgtttacatttttttttctttttatatttttaaagGGGATGGGATCAGTTTGAAACAAATGAGGCATTGTTTGGTGTGAAAAGCACATTCAATGAGGAACTTTATACAACAAAGCTTGAAAAAGGGCCTCAGACA
                tttttgtttacatttt  CT-rich tract
               atttttgtttacattt  TA-rich tract