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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttccatatttgtctccatttctttttcagtttgcttgttgattgaagttttcttgttcaattaaatgttagcgggtgtgtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTGATGCCAGCAG

Basic information

species Glycine max
transcript GLYMA16G00540.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G00540.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 13
------------------------------gtatttccatatttgtctc---catttctttttcagtttgcttg--ttgattgaagtt----ttcttgttcaa---ttaaatgtt--agcgggtgtgtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTGATGCCAGCAG------------------------
                               |||||  ||  || |  |    |||| |||||||   |||| |  |  | | |||||    ||  | || |    |||| | ||  |    |||||       |||||||| || | |||||||||||||| ||||| |||||||| || ||||| |||||||| |                        
gtatgttgtgttttttatttttttattcctttattttaatcctttttgcagttatttttttttcaacgtgctggactgaagttaagttagccttgctattaagaatttaactattcaattttgtgtgctctcatagACTGTTTCTTCAGTAGAATGGCACCGCAAAGGAGACTACTTATCAACAGTAATGCCAGCTGATATCCTTTTAATGATTTTATTTT
















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|6454193|gb|AW184806.1|AW184806
EST:     TTAAGGCACTTTAAG                         ACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
genomic: TTAAGGCACTTTAAGgtatttccat ... gtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
EST: gi|151411237|gb|EV281048.1|EV281048
EST:     GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAG                         ACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
genomic: GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAGgtatttccat ... gtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
EST: gi|7686391|gb|AW757039.1|AW757039
EST:     GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAG                         ACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
genomic: GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAGgtatttccat ... gtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
EST: gi|18038858|gb|BM307152.1|BM307152
EST:     GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAG                         ACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG
genomic: GCTGGCTTAAAGATGATAAACATATGGGTTTAAGGTTAAGGCACTTTAAGgtatttccat ... gtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttgattgaagttttcttgttcaattaaatgttagcgggtgtgtctatgcagACTGTTACTGCTGTAGAATGGCACCGGAAAGGTGACTACTTTTCGACAGTGATGCCAGCAG
  tgttgat  putative branch site (score: 4)
                      ttcaattaaatgtta  TA-rich tract