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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

agtaattctttgttttctttgcattgaactatttttgtatgtgtgttactgtgtttatattttggcatgttagcgttatctaaagatgtggcactcttctcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC

Basic information

species Glycine max
transcript GLYMA18G47920.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47920.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0023g00820.t01 (Vitis vinifera), 3'ss of exon 3
agtaattctttgttttctttgcattgaactatttttgtatgtgtgttactgtgtttatattttggcatgttagcgttatctaaagatgtggcactcttctcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC-
         |  | |    ||| |  | || || || | |||   |||   | |||  |     |||  |     |||  ||  |||||   |  |    ||| || ||| ||||||| | ||  ||||| ||||||||||| ||| | || ||||||||| |||||||||| ||  |||| || ||||||||| | |||||||| 
--------gtaatgtgtcatgcctgaagctcttgtttt-tgtagcttagattttttgcaagaaagca--tcgattttacttattgatgttatatac----ctttttgcagAAGCTGTTACAAGGTGATGACTTCTATAGGATAAGATTACCATCCAATGTTGTGAGTCCTCCTGGGAGGGAGTACATTATTTCTGCCGTGAAAGCT
















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|254345763|gb|GR859410.1|GR859410
EST:     CAGA-GAAATTTAA                         AGAGCTG-TGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
genomic: CAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
EST: gi|298193158|gb|HO033592.1|HO033592
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGA
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGA
EST: gi|192325685|gb|FK015042.1|FK015042
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         A
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattaca-
EST: gi|192325685|gb|FK015042.1|FK015042
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         A
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattaca-
EST: gi|298173457|gb|HO016793.1|HO016793
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCG
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCG
EST: gi|254331914|gb|GR843657.1|GR843657
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
EST: gi|208336506|gb|GE136786.1|GE136786
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
EST: gi|254345762|gb|GR859409.1|GR859409
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
EST: gi|192299870|gb|FG987828.1|FG987828
EST:     CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAA                         AGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT
genomic: CTGCGGTTTAAGCGTGATCTTTTGACTGACGTTGAGCAGAGGAAATTTAAagtaattctt ... tcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatattttggcatgttagcgttatctaaagatgtggcactcttctcttattacaGGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC
                       atctaaa  putative branch site (score: 3)
                                     cactcttctcttatt  putative PPT
                     ttatctaaa  TA-rich tract