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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtgatgtaatatcaactttacagtacaacctgcctgaaaacttctagaaacatattattgattgcatcctgactttatgttattttctgtaaaacaagTATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAAGCTGGGTGTTCAGACACGTGTTCAGAATACATTCTTGATGCCAGAGGTT

Basic information

species Glycine max
transcript GLYMA20G33030.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33030.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0074g00240.t01 (Vitis vinifera), 3'ss of exon 4
--aagtgatgtaatatcaactttacagtacaacctgcctgaaaacttctagaaacatattattgattgcatcctgact--ttatgttattttctg---taaaacaagTATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAAGCTGGGTGTTCAGACACGTGTTCAGAATACATTCTTGATGCCAGAGGTT
   | | || | |||  || |||| || |  |  | | |   | |||||   ||  | ||   | |  ||||    ||  | ||||  |    ||   |   |  || ||||||| ||| |||||||| || || ||||||||||| ||||| || ||| | ||||||||||| ||||| || | | ||||    |  |||||||||
tccatttatatcata--aaatttatag-atgaaatactt---agcttctcataatct-ttggcggtatcatctgtgctcatcatgtggtaacttgattttttatcagCATGATGGCAACTGTTATGAACTCCATATTGCTTCAATCAGCTTTAGAGAAGTTAGGTGTTCAGACGCGTGTGCAAAGTGCATTTCCAACACCAGAGGTT
















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|207819443|gb|GD791631.1|GD791631
EST:     GCATGGGTGTCTGCTACCGGGTTGGATAGACCTATGGCTTACCAAATAGG                         TATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAA
genomic: GCATGGGTGTCTGCTACCGGGTTGGATAGACCTATGGCTTACCAAATAGGgtaagtgatt ... gtaaaacaagTATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAA
EST: gi|208277967|gb|GE078334.1|GE078334
EST:     GCATGGGTGTCTGCTACCGGGTTGGATAGACCTATGGCTTACCAAATAGG                         TATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAA
genomic: GCATGGGTGTCTGCTACCGGGTTGGATAGACCTATGGCTTACCAAATAGGgtaagtgatt ... gtaaaacaagTATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagaaacatattattgattgcatcctgactttatgttattttctgtaaaacaagTATGATGGGAACAGTTATGAATTCTATTTTGCTTCAATCTGCTTTGGAAAAGCTGGGTGTTCAGACACGTGTTCAGAATACATTCTTGATGCCAGAGGTT
                       tcctgac  putative branch site (score: 2)
                                       ttttctgt  putative PPT
                              tttatgttattttctg  TA-rich tract