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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctgttaatgatttttgtttttcttctgtcaattctcgaaatttgttgattaaatgtactgaaatgacttataatatcttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATTTGTTTTCCTGTCTGTGGTTCAATGAAGTTGACCGGTTTACCCCTCGTGA

Basic information

species Glycine max
transcript GLYMA20G31590.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31590.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G011404_T01 (Zea mays), 3'ss of exon 5
gtatgttctgttaatgatttttgtttttcttctgtcaattctcgaaatttgttgattaaatgtactgaaatgacttataatatcttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATTTGTTTTCCTGTCTGTGGTTCAATGAAGTTGACCGGTTTACCCCTCGTGA
||||| |||||||             | ||  | | ||| ||   | |||  ||| |   | || |||  | ||   | | |  || | |||||||| |||||||| ||||||||    ||||  ||||| |||||||| || || |||||||| ||||||| |||||||||||| || || || ||||||||
gtatgctctgtta-----------cctgctagtattaatact---actttactgagt---tctattgacctaacaattcaaactttct-acagATGTCCCTGAAGGCTCTTTTATCGCAAGAGAGCACACACCGATGTCCAACTTATTTTCCTGCCTGTGGTACAATGAAGTTGATCGATTCACACCTCGTGA

upper sequence: GLYMA20G31590.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0072g01020.t01 (Vitis vinifera), 3'ss of exon 5
gtatg-ttctgtt-aatgatttttgtttttcttctgtcaattctcgaa-----atttgttgattaaatgtactgaaatgacttataatatcttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATTTGTTTTCCTGTCTGTGGTTCAATGAAGTTGACCGGTTTACCCCTCGTGA
||||| || |||| ||  || | | | ||| || ||  || | |  |      || | ||| ||  |    ||    | | || |    ||| ||||||||||| |||||||| ||||||||| | |||||||||||||| |||||||| ||||| ||||| || ||||||||||||||||| || ||||| ||||||||
gtatgattttgttcaagaatctctctattttttatgctaaatttgcagcttgcatctattgtttccaca-gctttctttatttgtttgctctattgacagATGTTCCTGAAGGATCTTTTATTGTGAGAGCACACACTCCAATGTCAAACTTGTTCTCCTGCCTTTGGTTCAATGAAGTTGATCGATTTACTCCTCGTGA
















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|23057530|gb|BU578204.1|BU578204
EST:     TGGACTGGAAAAATTTGATGCATCAGATCCAAATAAGCTTCTTCCAAGCA                         ATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATT
genomic: TGGACTGGAAAAATTTGATGCATCAGATCCAAATAAGCTTCTTCCAAGCAgtatgttctg ... cttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATT
EST: gi|21677734|gb|BQ630085.1|BQ630085
EST:     TGGACTGGAAAAATTTGATGCATCAGATCCAAATAAGCTTCTTCCAAGCA                         ATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATT
genomic: TGGACTGGAAAAATTTGATGCATCAGATCCAAATAAGCTTCTTCCAAGCAgtatgttctg ... cttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcgaaatttgttgattaaatgtactgaaatgacttataatatcttttgacagATGTACCTGAAGGTTCTTTTATTATCAGAGCACACACTCCGATGTCAAATTTGTTTTCCTGTCTGTGGTTCAATGAAGTTGACCGGTTTACCCCTCGTGA
           tgttgat  putative branch site (score: 4)
                                          tatctttt  putative PPT
                             aaatgacttataatat  TA-rich tract