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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtgacatgtttaactcaattgtcttatctgatgttgtcaccttagatacgtttttaacattgtttttcgtttggcttagTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCAAATGGTTCACACCCTGGTAACTGCATATCTGTGCTTCGA

Basic information

species Glycine max
transcript GLYMA16G34350.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G17920.1 (Arabidopsis thaliana), 3'ss of exon 8
----------gttgtgacatgtttaactcaatt-gtcttatctgatgttgtcaccttagatacgtttttaacattgtttttcgtttggctt---agTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCAAATGGTTCACACCCTGGTAACTGCATATCTGTGCTTCGA
          |   | ||||    |    ||   |  |||| || |||| | |  |||   ||     | ||||| | |||  ||||| ||   ||||||| |||||||| ||||| ||  |||| ||||| |||||||||||  |||| || ||| | ||||| |||||||||||||| ||||| 
gtactacacagacttaacattgccatagaaaccagaattatttggtgtt-taa--ttaatcacccgagtgacattttctttgttttggttttatagTGGGACGTTCTTTCAAATGGAAACTCTGTTCAAGAAGTTGCTCATATCACAAACGGATCAAATCCTGGAAACTGCATATCTGTTCTTCGT

upper sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G73360.1 (Arabidopsis thaliana), 3'ss of exon 8
gttgtgaca-tgtttaactcaattgtcttatctgatgttgtcaccttagatacgtttttaacattgtttt-tcgtttggc---ttagTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCAAATGGTTCACACCCTGGTAACTGCATATCTGTGCTTCGA
||    |||       | ||||     | ||  ||     |||  | | | | || | ||   ||   || | |||||      ||||||||||||||||| || || || || |||||||| |||||||| ||  |||| || ||||| ||||| ||||||||||| || || || 
gtaacaacaacacaagattcaaaatcttcatacgaaagattcatttgata-atgtatatattgtttccttcttgtttgtgatactagTGGGATGTTCTTTCAAACGGAAACGCAGTGCAAGAAGTTGCTCACATCTCAAACGGATCACATCCTGGAAACTGCATATCGGTTCTACGT

upper sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 8
gttgtgacatgtttaactcaattgtcttatctgatgttgtcaccttagatacgtttttaacattgtttttcgtttggcttagTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCAAATGGTTCACACCCTGGTAACTGCATATCTGTGCTTCGA
||     |||| || | | |  |  || ||  ||   |       |     | ||  ||||||   ||    ||   |  ||||||||||||| |||||||||||||| |||||||||||||| ||||| ||||||||  |||| |||||||||||||||||||| ||  | 
gtatatgcatgattgaattatata-ctaattggaaactactgttatgatatctttagtaacatgtgttaattttcttcacagTGGGATGTTCTCTCCAATGGCAATGCCGTGCAAGAGGTTGCCCATATTGCAAATGGGCCACATCCTGGTAACTGCATATCTGTCCTGAGG

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|19347149|gb|BM892029.1|BM892029
EST:     CTCCACAAACTGTGTTCAATTTCTTTAAGGATGAAAAGAAAAGGCCTCAG                         TGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCA
genomic: CTCCACAAACTGTGTTCAATTTCTTTAAGGATGAAAAGAAAAGGCCTCAGgttgtgacat ... tttggcttagTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctgatgttgtcaccttagatacgtttttaacattgtttttcgtttggcttagTGGGATGTTCTTTCCAATGGCAATGCTGTGCAAGAGGTTGCTCATATAGCAAATGGTTCACACCCTGGTAACTGCATATCTGTGCTTCGA
                           ttttaac  putative branch site (score: 2)
                                      tttttcgttt  putative PPT
                          tttttaacattgtttt  TA-rich tract