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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgaatcactgattctctgatcaatttgatagataggcttgcttgtcacaatgtcagtatctttaacgtgtaagcacatccactttttgctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG

Basic information

species Glycine max
transcript GLYMA19G41420.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41420.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 3'ss of exon 9
gtttgaatcactgattctctgatcaatttgatagataggcttgct--tgtcacaatgtcagtatc-tttaacgtgtaagc-acatccacttt--ttgctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
      ||  |   ||   |||| |  | ||||   |  ||| ||  ||||  | | |    ||| |  |     |  || | ||| | | |  ||| ||| | ||||| |||| |||||||||||||| || || || |||||||| || ||||||||||| || |||||||| || |||||||| || ||||||||||||
----tcattccaatttggttgataa--tagatactcattcttcctcctgtctaattcttgtaatcatccagtccatttgccaaatctaatatggttgtttttgcagGTTTTGGGCACTCCAACAAGGGAGGAAATTAAATGCATGAACCCCAACTATACAGAGTTCAAATTCCCCCAAATTAAAGCTCACCCATGGCACAAG

upper sequence: GLYMA19G41420.2 (Glycine max), 3'ss of exon 9
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 9
gtttgaatcactgattctctgatcaatttgatagataggcttgcttgtcacaatgtcagtatctttaacgtgtaag-cacatccactttttgctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
                           |    |   |  ||||||  |     | || || | |||  || ||    |     ||    ||||||| | ||||  | || ||||| ||  | || || || || ||||||||||| ||||| || || ||||| ||||| ||||||||||| ||||| |||||||||
--------------------------gtacgcatgcattcttgctcttttt--tttctgttttttttgcgagtcgctcttgctcaagacttgcttttgcagGTCTTAGGTACTCCTACTCGCGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAG

upper sequence: GLYMA19G41420.2 (Glycine max), 3'ss of exon 9
lower sequence: EFJ07923 (Selaginella moellendorffii), 3'ss of exon 9
gtttgaatcactgattctctgatcaatttgatagataggcttgc-ttgtcacaatgtcagtatctttaacgtgtaag-cacatccactttttgctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
                                   || || ||| || |  |  | |   |   |||  || ||    |     ||    ||||||| | ||||  | || ||||| ||  |||| || || || ||||||||||| ||||| || || ||||| ||||| ||||||||||| ||||| |||||||||
----------------------------------gtacgcatgcattcttgctctcttttttctttttgcgagtcgctcttgctcaagacttgcttttgcagGTCTTAGGTACTCCTACTCGGGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAG

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|193616610|gb|FK568242.1|FK568242
EST:     CCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG                         GTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTAT
genomic: CCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAGgtaatctttc ... gctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTAT
EST: gi|6963904|gb|AW432597.1|AW432597
EST:     CCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG                         GTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTAT
genomic: CCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAGgtaatctttc ... gctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcacaatgtcagtatctttaacgtgtaagcacatccactttttgctttggtagGTTCTGGGAACTCCAACAAGGGAAGAGATAAAGTGCATGAATCCTAACTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
                 ctttaac  putative branch site (score: 3)
                                   tccactttttgcttt  putative PPT
              tatctttaa  TA-rich tract