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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgattttgtgatgcatctgtctatttgtttggcatatattgtcatatggtgtaatgtttatttacgagtatatctaatctgttttattgatttttccagGTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCCTTCAGGAACTCATTTGATGATGGTTGGGATAGGATACTGTCAAGGCATC

Basic information

species Glycine max
transcript GLYMA05G08220.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G08220.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 5
--ctgattttgtgatgcatctgtctatttgtttggca-tatattgtc-atatggtgtaatgtttatttacgagtatatctaatctgttttattgatttttccagGTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCCTTCAGGAACTCATTTGATGATGGTTGGGATAGGATACTGTCAAGGCATC
   |  | |||   | |  |||   || | |||| || |  |  ||| ||    |    ||      |     |||||||||    |     ||  |||||||||| || |  ||||| ||||| ||| ||||||||||||||||||||||  | |||||||| || ||   ||||||||||||| | ||| |||| |||||||
ttttagtgttgc--taccactgcagatctctttgtcaattcaaagtccatccctttctttgcaaccctcttcctatatctaaaggatgcatctg--ttttccagGTCATCGGTGCTATGGGTGGATTTGCATACATCATGGACAAAGATGGGGCTTTCAGGAATTCGTTCAGTGATGGTTGGGATCGAATATTGTCCAGGCATC
















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|21600809|gb|BQ611140.1|BQ611140
EST:     GACTTTTTGTGGCAAGGGATGTTTTCCTTGNNNNNNNGGCTGTACAAACT                         GTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCC
genomic: GACTTTTTGTGGCAAGGGATGTTTTCCTTGTTTTTTTGGCTGTACAAACTgtgagctttc ... atttttccagGTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggtgtaatgtttatttacgagtatatctaatctgttttattgatttttccagGTGATTGCAGCTATTGGTGGCTTTTCATACATCATGGACAAAGATGGTTCCTTCAGGAACTCATTTGATGATGGTTGGGATAGGATACTGTCAAGGCATC
                                        tattgat  putative branch site (score: 3)
                                              tttttcc  CT-rich tract
                        tatatctaatctgttt  TA-rich tract