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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcaatattaataatgttacctatttaactgtcacatgtttttaggtgtgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT

Basic information

species Glycine max
transcript GLYMA08G16620.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 14
-----gtttcaatattaataatgttacctatttaactgtcacatgtttttaggtg-tgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
      ||| ||| |||  |   ||      ||| ||   | || |||| || || || |  || | |||   | ||      ||| | |||||||||||| || |||||||| || || || ||||||||| | ||||| ||| |||||||||||||||||||||||||||||||||| ||||| || || |
gtttgattttaattttatcatcattttagtattagctaatatat-ttttgagatgatggtcattgacagtatttcttga----tttctagcagCAATGTGTATCTTTGGTGCTCTCCCTGATCAGCAGCAGCTTAGATGCATGGCGGACACGGCAGTATGATTATTATCAGAGGGTTTTAAATGGGATCTTGT

upper sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S113_110V6.1 (Physcomitrella patens), 3'ss of exon 15
gtttcaatattaataatgttacctat---ttaactgtcacatgtttttaggtgtgatttttaagagtgagt--gttataatttttttg--------gcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
|     | ||| | |    || | ||   |||| ||  ||||    |      ||  | ||| |  |||     ||   ||||| |||        ||||||||| || || |  ||| |    || |||   |  ||||||||||| ||| |||||||||| |||||||||||||||| |||| ||||||| ||  | |
gacaagagattgacatgagtagccatatattaagtggtacatccgatgtatgatggatgttacgcttgaactaattgggattttattgcatgctgtgcagCAATGCGTATCATCTGTGTTGGAGCTTATTGCTAAAAGCCTGGATGCATGGCGGACACGGCAATATGATTATTATCAGAAGGTTCTGAATGGTATTCTTT

upper sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S263_81V6.1 (Physcomitrella patens), 3'ss of exon 15
------gtttcaatattaataatgttacctattta-actgtcaca----tgtttttaggtgtgatttttaagagtgagtgttataatttttttgg--cagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
      ||||    ||  ||    ||||  |||   | |||  |     |||||||  |     |||     ||      ||||| |   ||| |  |||||||| || || |  ||  |    || ||    |  || |||||||| ||| ||||||||||||||||||||||||||| ||| |||||||| ||  | |
acttttgtttggcaatgcatctgattacgaattggcaatgttccgaaattgtttttgtgaactttttccttcagctgacattatactgccttttgttcagCAATGCGTATCATCAGTTTTGGAGCTTATCGCTAAAAGTCTGGATGCATGGCGGACACGGCAGTATGATTATTATCAGAAGGTGTTGAATGGTATTCTTT

upper sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ26597 (Selaginella moellendorffii), 3'ss of exon 15
gtttcaatattaataatgttacctatttaactgtcacatgtttttaggtgtgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
             | | |||| |  |  |||| |  ||   |||     ||  || | | | ||   | ||    | || ||||||||||||||||||||||||  | || ||||| ||||| ||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
------------gtga-gttatcc-tagaact-ttgcaaactttgtttcgttcttctcatg-gtctttctttgtttgttcttggcagCAATGTGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT

upper sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
gtttcaatattaataatgttacctatttaactgtcacatgtttttaggtgtgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
             | | |||| |  |  |||| |  ||   |||     ||  || | | |  |     || |  | || |||||||||||| |||||||||||  | || ||||| ||||| ||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
------------gtga-gttatcc-tagaact-ttgcaaactttgtctcgttcttctcatggtttttctttgtt-tgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT

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|51336073|gb|CO979939.1|CO979939
EST:     GGACAATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAG                         CAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGG
genomic: GGACAATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAGgtttcaatat ... tttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGG
EST: gi|51338152|gb|CO982018.1|CO982018
EST:     GGACAATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAG                         CAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGG
genomic: GGACAATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAGgtttcaatat ... tttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGG
EST: gi|9902125|gb|BE611093.1|BE611093
EST:     GGACAATACAGAACCTACTAAAGCGATTCCATCTCAGTTTAACTGAAGAG                         CAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGCATGCTTGG
genomic: GGACAATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAGgtttcaatat ... tttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcacatgtttttaggtgtgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
                                           ttttttt  CT-rich tract
                                 agtgttataatttttt  TA-rich tract