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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcctttcagttgcttttttatgggcttttgtctgggagagtaacttttttttacttcttttgacatgtctatgtgtattgtgttgtcagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCAATGGACAGTTCCAGACTCCGAGTTGCGAGAATCTCTTAGGCTAGCAGTT

Basic information

species Glycine max
transcript GLYMA20G33590.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G03540.1 (Arabidopsis thaliana), 3'ss of exon 10
gtagcctttcagttgcttttttatgggcttttgtctgggagagtaacttttttttacttcttttgacatgtctatgtgtattgtgttgt-cagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCAATGGACAGTTCCAGACTCCGAGTTGCGAGAATCTCTTAGGCTAGCAGTT
|||     | |     |    ||    |  |  | ||| | |      | | |||  |  |  ||| |  ||| |    |     | |  |||||| |||   ||||||||   |||||| ||  | ||||||| ||||||||||||||||||||||||| | |||||  |||| || || || || || |||
gtaagtcctaaacatgtaaaataaacacagtaat-tggcaaatgtttatatatttggtaatgatgataaatctgtaaaaaaaaaatggaacagGTTCAAGATGTTCAATATGCAGTTTGATGAGTTGCATCAGAGACAATCGCAATGGACAGTTCCAGACACAGAGTTAAGAGAGTCACTAAGACTTGCTGTT

upper sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 10
--------------gtagcctttcagttgcttttttatgggcttttgtctgggaga---gtaacttttttttacttcttttgacatgtct----atgtgtattgtgttgtcagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCAATGGACAGTTCCAGACTCCGAGTTGCGAGAATCTCTTAGGCTAGCAGTT
              | | ||||    | | ||  ||     ||||| | |     |   ||||  || || ||  | |||| || || ||    | |||  || |||| ||||||| ||| |||| |||||   ||||||||| || |||||||||||||| || ||||||||||| ||| | ||| ||||||| ||||| ||||| ||||||
gttatgattaagttgcatccttcttatagattgctttccttcttttctttaaataatatgtaatcttcttataaatattttaacctggctggagaagtgccttttgttctcagGTTCAAGACATTTAATATGCAGTTTGAGGAGCTGCATCAGAAACAATCTCAGTGGACAGTTCCTGACACTGAGCTGCGAGAGTCTCTGAGGCTTGCAGTT
















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|209723746|gb|BW665669.1|BW665669
EST:     TGGAACTGGAAGCAGTAGTGGTGCTTCAAGAGCAATTGTGAAAGACAG                         GTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCA
genomic: TGGAACTGGAAGCAGTAGTGGTGCTTCAAGAGCAATTGTGAAAGACAGgtagcctttc ... gtgttgtcagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCA
EST: gi|298193156|gb|HO033590.1|HO033590
EST:     AGTGGAACTGGAAGCAGTAGTGGTGCTTCAAGAGCAATTGTGAAAGACAG                         GTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCATAAACAATCGCA
genomic: AGTGGAACTGGAAGCAGTAGTGGTGCTTCAAGAGCAATTGTGAAAGACAGgtagcctttc ... gtgttgtcagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagagtaacttttttttacttcttttgacatgtctatgtgtattgtgttgtcagGTTTAAGGCATTCAATATTATGTTTGAGGAACTCCATCAGAAACAATCGCAATGGACAGTTCCAGACTCCGAGTTGCGAGAATCTCTTAGGCTAGCAGTT
      taacttttttttactt  TA-rich tract