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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattatagagtttttaaattttgttttatagctaaataagattttggcatgccactatcttcaattcttcatatggatattacacctccgttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTAACTGACTTAGTGACTGA

Basic information

species Glycine max
transcript GLYMA06G25880.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G25880.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G31190.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------------------------------aattatagagtttttaaattttgttttatag--ctaaa--taagattttgg-----catgccactatcttcaattcttcatatggatattac--acctccgtta-----------tttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTAACTGACTTAGTGACTGA
                                                               ||   |||  || ||||| ||||  || |  ||| |   ||| | ||||      | | ||| |      |      |||   | |  ||  || |   ||            ||   |||| || ||||||||||| ||||||||  |||||||||| ||||||||  | | ||||||||| |||||
gttcgaaatttcatgtctgtagaatacaatatctgaatttatgtttattggaaacaaaaactcttgatgagacttgaaattgtgttcaatggtactagaatcaagttcttgggttcgtagggcacaactgcacaaggagaataataacaaaactaacttgaattgaatcatctggtttgttagGTGGTTATGGAAGCTGTAAATAAGCCAAGGAATATTACTTATAAAGGTCTCAGTGACTTAGTAACTGA

upper sequence: GLYMA06G25880.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g01800.t01 (Vitis vinifera), 3'ss of exon 2
aattatagagtttttaaattt---tgttttatagctaaataagattttggcatgccactatcttcaattcttcatatggatattacacctccgttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTAACTGACTTAGTGACTGA
  ||      ||   |  | |   |||||  ||||| |  || |    || |    | |||         ||||||     |||     | ||    || |||||||||||||||||||||||||||||||||||| |||| ||||||||  | || ||||| ||||||||
gtttggcacattcccaggtctccttgtttggtagctgag-aaaaccaaggaaaagaagtat---------ttcata-----attctggtttcg----tttcagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATGTTACCTATAAAGGGCTCACCGACTTGGTGACTGA
















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|17154103|gb|BM144036.1|BM144036
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|192322372|gb|FK014613.1|FK014613
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCGCAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|120532442|gb|EH260575.1|EH260575
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|298193777|gb|HO040425.1|HO040425
EST:     CCATTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|192301816|gb|FG997688.1|FG997688
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|213618101|gb|DB965258.1|DB965258
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
EST: gi|19452428|gb|BM953838.1|BM953838
EST:     CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAG                         GTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA
genomic: CCACTCACCTCATTGAAGTGGTTAAAACTGCTGCACAGACTGGTGCTCAGgtttttattt ... ttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcatgccactatcttcaattcttcatatggatattacacctccgttatttacagGTTGTGATGGAAGCTGTTAATAAGCCTCGGAATATTACATATAAAGGATTAACTGACTTAGTGACTGA
                                       cctccgtt  CT-rich tract
                                             ttatttaca  TA-rich tract