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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcaatattaataatgttacctatttaactgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT

Basic information

species Glycine max
transcript GLYMA05G32460.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 14
-----gtttcaatattaataatgttacctatttaactgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
      ||| ||| |||  |   ||      ||| ||   | || |||  |    || |  || | ||| || |  |  ||| | |||||||||||| || |||||||| || || || ||||| ||| | ||||| ||| |||| ||||||||||||||||||||||||||||| ||||| || || |
gtttgattttaattttatcatcattttagtattagctaatatatttttgagatgatggtcattgacagtatt-tcttgatttctagcagCAATGTGTATCTTTGGTGCTCTCCCTGATCAGCAGCAGCTTAGATGCATGGCGGACACGGCAGTATGATTATTATCAGAGGGTTTTAAATGGGATCTTGT

upper sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
lower sequence: PP1S113_110V6.1 (Physcomitrella patens), 3'ss of exon 15
------gtttcaatattaataatgttacct--atttaactgtcaaatgtttc-tgggtgtgattgttaagagtgttataattctttt---tg----gcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
         |  | || | ||    ||  |  | |      ||  |||| |  ||| ||| |   || |     ||   ||| | ||   ||    ||||||||| || || |  ||| |    || |||   |  ||||||||||| ||| |||| ||||| |||||||||||||||| |||| ||||||| ||  | |
gacaagagattgacatgagtagccatatattaagtggtacatccgatgtatgatggatgttacgcttgaactaattgggattttattgcatgctgtgcagCAATGCGTATCATCTGTGTTGGAGCTTATTGCTAAAAGCCTGGATGCATGGCGGACACGGCAATATGATTATTATCAGAAGGTTCTGAATGGTATTCTTT

upper sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
lower sequence: PP1S263_81V6.1 (Physcomitrella patens), 3'ss of exon 15
------gtttcaatattaataatgttacctattta-actgtc----aaatgtttctgggtgtgattg--ttaag--agtgttataattctttttgg-cagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
      ||||    ||  ||    ||||  |||   | |||     || ||||| || |     ||   || ||      ||||| | | |||||  |||||||| || || |  ||  |    || ||    |  || |||||||| ||| |||| |||||||||||||||||||||| ||| |||||||| ||  | |
acttttgtttggcaatgcatctgattacgaattggcaatgttccgaaattgtttttgtgaactttttccttcagctgacattatactgccttttgttcagCAATGCGTATCATCAGTTTTGGAGCTTATCGCTAAAAGTCTGGATGCATGGCGGACACGGCAGTATGATTATTATCAGAAGGTGTTGAATGGTATTCTTT

upper sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ26597 (Selaginella moellendorffii), 3'ss of exon 15
gtttcaatattaataatgttacctatttaactgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
             | | |||| |     |  |  ||||  ||  |  ||     |  |     |  | |  || || ||||||||||||||||||||||||  | || ||||| ||||||||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
------------gtga-gttatcctagaactttgcaaactttgtttcgttcttctcatggtctttctttgtttgttcttggcagCAATGTGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT

upper sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
gtttcaatattaataatgttacctatttaactgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
             | | |||| |     |  |  ||||  ||     ||     |  |     |  | |  || || |||||||||||| |||||||||||  | || ||||| ||||||||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
------------gtga-gttatcctagaactttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT

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|13480286|gb|BG509629.1|BG509629
EST:     GGACGATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAG                         CAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGG
genomic: GGACGATACAGAACCTACGAAAGCGATTCCATCTCAGTTTAACTGAAGAGgtttcaatat ... tttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT
 atttaac  putative branch site (score: 3)
                                          ttcttttt  putative PPT
                                  tgttataattcttttt  TA-rich tract