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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctattctctctcctgcatactataggctttcagtaggataactgtagtgtaatctagtataacagatttccccctttagTCTCCCACAGGAGATGAAGCATACAGTGAAAATGGTTTAGTGCCTCGGACAATACGTTTGCTCAAGGATAAGTACCCAGACCTT

Basic information

species Glycine max
transcript GLYMA06G12110.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G12110.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 4
gttct-attctctctcctgcatactataggctttcagtaggataact--gtagtgtaatc----tagtataacagatttcccc-ctttagTCTCCCACAGGAGATGAAGCATACAGTGAAAATGGTTTAGTGCCTCGGACAATACGTTTGCTCAAGGATAAGTACCCAGACCTT
||||| ||||||  ||| |  | || |  |  |||  ||  || |     | |||| |||    |  | |||  | ||    | |  ||||||||||||||||||||||||| || ||| |||||||||||||| |||||||| || |||||||| || |  ||||| || |||
gttcttattctccatccagtttcctttttgaattccataaaatgatataatggtgtcatcattgtcatgtaattgtttcttgcacactagTCTCCCACAGGAGATGAAGCATTCAATGACAATGGTTTAGTGCCCCGGACAATTCGATTGCTCAAAGACAGATACCCTGATCTT
















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|6481889|gb|AW201160.1|AW201160
EST:     TTGGTGTTAATAGTGTTGTGCTCTTCCCCAAAATTCCAGATGCTTTGAAG                         TCTCCCACAGGAGATGAAGCATACAATGAAAATGGTTTAGTGCCTCGAACA
genomic: TTGGTGTTAATAGTGTCGTGCTCTTCCCTAAAATTCCAGATGCTTTGAAGgttctattct ... ccccctttagTCTCCCACAGGAGATGAAGCATACAGTGAAAATGGTTTAGTGCCTCGGACA
EST: gi|193669590|gb|FK612316.1|FK612316
EST:     TTGGTGTTAATAGTGTTGTGCTCTTCCCCAAAATTCCAGATGCTTTGAAG                         TCTCCCACAGGAGATGAAGCATACAATGAAAATGGTTTAGTGCCTCGAACA
genomic: TTGGTGTTAATAGTGTCGTGCTCTTCCCTAAAATTCCAGATGCTTTGAAGgttctattct ... ccccctttagTCTCCCACAGGAGATGAAGCATACAGTGAAAATGGTTTAGTGCCTCGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctttcagtaggataactgtagtgtaatctagtataacagatttccccctttagTCTCCCACAGGAGATGAAGCATACAGTGAAAATGGTTTAGTGCCTCGGACAATACGTTTGCTCAAGGATAAGTACCCAGACCTT
                                gtataac  putative branch site (score: 3)
                                          tttcccccttt  putative PPT
                              tagtataa  TA-rich tract