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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaatgtgaacaaatggatgatttgttgtttaacttgttttgtttttaggtaggccactgtttttaattttaagtgaagtattatgaattcttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAATTATTGGAAATGAATCATTGATAAATATTGAAACTGATCGCACCTCTTG

Basic information

species Glycine max
transcript GLYMA03G27460.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27460.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os11g03780.1 (Oryza sativa), 3'ss of exon 3
--caaatgtgaacaaatggatgatttgttgtttaacttgttttgtttttaggtaggccactgtttttaattttaagtgaagtattatgaattcttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAATTATTGGAAATGAATCATTGATAAATATTGAAACTGATCGCACCTCTTG
   |||    |  ||||| |  |   |    |   |||  |   |||  |   |       || ||     || | |||   ||    ||||  |  || ||| ||||||||||| || ||  |||| ||||||||||||||||| ||||| || |||||| ||||||| |  ||| |  |    |||||| || | |||||
actaaaacctagaaaatgaaacaaaagaatctgtgctttataaatttccattaacattgaagtatt--gccttcactgactaatgcaaaatttatacttcagGGTTTGAAGCTGGAGGGCCCCACACCCCTTCAAATATTGACCCATGGTCTATCATTGGAGATGAATCCTCTATATACGTCACGACTGATTGCTCATCTTG

upper sequence: GLYMA03G27460.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g20420.3 (Oryza sativa), 3'ss of exon 3
caaatgtgaacaaatggatgatttgttgtttaacttgttttgtttttaggtaggccac--tgtttttaattttaagtgaagtattatgaattcttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAATTATTGGAAATGAATCATTGATAAATATTGAAACTGATCGCACCTCTTG
   || |     | || ||| |||   | || |    |    || |  | |     |   |||| |   || |  |  || |  ||  | | |  |||  ||| || ||||||||||||  ||| |||||||||||||||||||| ||||  || |||||| |||| |||   |||| | | ||||| ||| |  | || ||
--gatctcgtttagtgaatggtttaaagattcagccctggatttctctgtttccttatgatgttatgttttctgtgcaaatttctaacagtccaagttacagGTTTCGAAGCTGGTGGCATTAATACTCCTTCAAATATTGACCCATGGTTGATAATTGGAGATGAGTCAAATATAATTGTGGAAACAGATAGGTCATCATG
















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|14125064|gb|BG789502.1|BG789502
EST:     TAATCATGCTGGAGCTGGGGGATTGTGGGCTGAGCTTGTGAGCAACAGAG                         GATTTGAAACTGGTGGCCCTAACACTCCT
genomic: TAATCATGCTGGAGCTGGGGGATTGTGGGCTGAGCTTGTGAGCAACAGAGgttattttca ... cttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCT
EST: gi|10237732|gb|BE806620.1|BE806620
EST:     GGGGATTGTGGGCTGAGCTTGTGAGCAACAGAG                         GATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAA
genomic: GGGGATTGTGGGCTGAGCTTGTGAGCAACAGAGgttattttca ... cttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaggtaggccactgtttttaattttaagtgaagtattatgaattcttgttttagGATTTGAAGCTGGTGGCCCTAACACTCCTTCAAATATTGACCCTTGGTCAATTATTGGAAATGAATCATTGATAAATATTGAAACTGATCGCACCTCTTG
                ttttaat  putative branch site (score: 3)
                                           ttcttgtttt  putative PPT
               tttttaattttaagtg  TA-rich tract