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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctttcactaatatttaacattggcattctttgaaaaaactgtttgaagttaattttcattgttttttaaagtttattaatcctttggctactgaatattccaagctgatatgtcatctcatgacattttcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCCGATTTCTCTACA

Basic information

species Glycine max
transcript GLYMA19G36820.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 8
gtagctttcactaatatttaacattggcattctttgaaaaaactgtttgaagttaattttcattgttttttaaagtttattaatcctttggctactgaatattccaagctgatatgtcatctcatgacattttcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCCGATTTCTCTACA
                                                   ||  | | | |||  ||||    |||| ||  |  ||| | |  ||  | ||    | | |    | || | |    ||||    |||||| ||||||||||| |||||||| || ||||| ||||||||  || ||||||| || |||||| | ||||| || || || || |||||||||||||| || 
---------------------------------------------------gtatactcttattcatttt--gtgtttgttttttgttttgatgatgcttttttttgggttac---tgatgttaatctatttg---ttgcagACCGTCGAGTGCTAGAAACTCGGTTAGCTCGCCAATAATGACTCGGAATTCGTCGTATGGAAGATCACCTTATTCACGGAGACTATCCGATTTCTCAACT

upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 8
gtagctttcactaatatttaacattggcattctttgaaaaaactgtttgaagttaattttcattgttttttaaagtttattaatcctttggctactgaatattccaagc-tgatatgtcatctcatgacatt----ttcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCCGATTTCTCTACA
                                            |  |  | | |||| | ||   |||   | |  ||||  | || |   | |   ||| |     | ||  |||   |    | ||| |    ||||| |||||||| || ||||| ||||| || |||||||||||||||||||| ||||| || || ||||| || ||||| || || ||  ||||||| || |||||||| 
-----------------------------------------gtagcctccactaaattcttatctctttcatatggatatt--ttctattattcccacatactggtgtcatggcatgctctactttaacactgctcttcatctgcagGCCTTCTAGTGCTAGAAATTCAGTAAGCTCACCAATAATTGCCAGGAACTCCTCCTATGGTCGATCACCTTATTCACGCCGGCTATCTGACTTCTCTACT
















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|298178804|gb|HO024539.1|HO024539
EST:     GAGATGGCTCATGAAACTGCCATGAATAATGCCAGAAAGAGTAGTGCAAG                         GCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTC
genomic: GAGATGGCTCATGAAACTGCCATGAATAATGCCAGAAAGAGTAGTGCAAGgtagctttca ... tcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggctactgaatattccaagctgatatgtcatctcatgacattttcatttgcagGCCGTCGAGTGCCAGAAACTCTGTAAGCTCACCAATAATTGCTAGGAATTCTTCTTATGGACGGTCACCATACTCGCGTAGGCTATCCGATTTCTCTACA
                   agctgat  putative branch site (score: 4)
                                          ttttcattt  putative PPT
                                         attttcattt  TA-rich tract