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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcagtgtttaatcaattcagtttgggtttgaaatttgttttgctcgatcgagttaccgttatgtggttacttgcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGGGTTGGCGGGATCTCATTTTCCAAAGGATACGAACTGCGTTTGGTTTTGGAATTTGAGATTTT

Basic information

species Glycine max
transcript GLYMA09G16680.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G16680.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g36150.1 (Oryza sativa), 3'ss of exon 2
gtgagtcagt--gtttaatcaattcagtttgggtttgaaatttgttttg-ctcg---atcgagttaccgttatgtggtta-cttgcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGGGTTGGCGGGATCTCATTTTCCAAAGGATACGAACTGCGTTTGGTTTTGGAATTTGAGATTTT
||     |     |   |  || |   | |   ||  |   |  ||||| |||    | | |  ||    | |||||| | ||    | | ||||||||||||| ||||||||||||||||||| ||| | || ||| | || ||||| ||||| ||||||||    | |||||||||||| || | |     |
gtattctatctcatcctacgaacttcctgttaattaaaccataattttggctcaggcacctaactaaatatgtgtggtcatctcttgacttcagATATGGAAATTCAACTGTGGTGGAGAACACGGAGCGAGGCTGGAGAGAACTCATCTTCCAGAGGATACGCGGAGTGTTTGGTTTTGGGATCTAAAGCAGT

upper sequence: GLYMA09G16680.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g06710.t01 (Vitis vinifera), 3'ss of exon 2
-------------gtgagtcagtgtttaatcaattcagtttgggtttgaaa---tttgttttgctcgatcgag-----ttaccgttatgtggttacttgcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGGGTTGGCGGGATCTCATTTTCCAAAGGATACGAACTGCGTTTGGTTTTGGAATTTGAGATTTT
             |   |   || || | |   ||| ||||  |||   ||   | |||  | ||   | | |     ||    ||   | | || ||    |||||||||||| |||||||| ||||| |||||||| || || || ||| |||||||||||||||| | |||| || | | ||||||||||||||| |||  ||||
gttggtttctgttgatggcttgttttgattttgttctgtttttgttcctaaggctctgtgattctgacttgtggctgtttgtgattgctttggtatttcattatgcagATATGGGAATGCAACAGTGGTAGAGAACACTGAAAGAGGGTGGAGGGATCTCATTTTCCACAAGATAAGAGCAGTGTTTGGTTTTGGAATATGAATTTTT

upper sequence: GLYMA09G16680.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S454_1V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------gtgagtcagtgtttaatcaattcagtttgggtttgaaatt---tgttttgctcgatcgagttaccgttatgtggttacttgcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGGGTTGGCGGGATCTCATTTTCCAAAGGATACGAACTGCGTTTGGTTTTGGAATTTGAGATTTT
                  | || ||  ||     ||    | || |||||  | |   ||  |     ||  || |     || |   ||||  |     | ||||||||| |||||||| |||||||| ||||| || ||||| ||||| ||||| || ||||| | ||| ||  |||  |||||||||||  | | |  |  |
ttttgtcattttctttcaaatcggtcattttcagatagtatctgtgtttggcagtacctgcctactaggactgaatcgtgattttcctgttatct-----ttcagATATGGCAATGCAACAGTGGTGGAAAACACGGAAAGGGGATGGCGAGATCTGATCTTCCATAAGATTCGTGCTGTTTTTGGTTTTGGGCTGTAACTTCGT

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|193598517|gb|FK554599.1|FK554599
EST:     GGAGTCACTGTTGTTAAGCTCACACATAGTGATGTCCCTGAAGAAGACAG                         ATATGGAAATGCAACTGTGGTG-AGAACACAGAGAGGG
genomic: GGAGTCACTGTTGTTAAGCTCACACATAGTGATGTCCCTGAAGAAGACAGgtgagtcagt ... gcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaatttgttttgctcgatcgagttaccgttatgtggttacttgcaaatgcagATATGGAAATGCAACTGTGGTGGAGAACACAGAGAGGGGTTGGCGGGATCTCATTTTCCAAAGGATACGAACTGCGTTTGGTTTTGGAATTTGAGATTTT
     atttgtttt  TA-rich tract