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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacaacacaagagagatatatttcgagaagtagctagaattaataatattgcaaggttaatctaacgtgtgtgtgtgtgggtcgtgtgttgttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGGCTGCCACTACCTCTTGGCCTTAAAGCTCCAGCACTTGATGGTGTAATGG

Basic information

species Glycine max
transcript GLYMA13G37010.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G37010.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g24070.1 (Oryza sativa), 3'ss of exon 5
----------------------------------------------------------------------------------------cacaaca-caagagagatatatttcgagaagtagctagaattaataatattgcaaggttaatctaacgtgtgtgtgtgtgg-gtcgtgtgttgttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGGCTGCCACTACCTCTTGGCCTTAAAGCTCCAGCACTTGATGGTGTAATGG
                                                                                         |  | | |   |   |||||  |  |  |  ||  ||| | |  | | |    | |  |||  ||    |   | |     ||  |   || ||||  |||||||  |||||||| |||||||||||  ||||||||||||| ||||| ||| ||||  | |||||||| || ||  | ||  || | ||  |||| ||||
gtaagtatatatcaaacatttgtaactataacttcatcagaaggaacataaatattgaagatccatactggcaatgtttagctgaaactatcatatctctaaccatataacttcatcacaaggaagattcagaagtttcttcatg--aattaaattgcttcattttcattgttttaattttttttcccagTCAAGCGAGAGCATCGACGCAGCTATCGGTGATGTTTTATCGAAACCGTGGTTGCCTTTGCCTCTTGGACTGAAGCCACCTTCAGTGGACAGTGTGATGG

upper sequence: GLYMA13G37010.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
-cacaacacaagagaga---tatatttcgagaagtagctagaattaataatattgcaaggttaatctaacgtgtgtgtgtgtgggtcgtgtgttgttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGGCTGCCACTACCTCTTGGCCTTAAAGCTCCAGCACTTGATGGTGTAATGG
  | |   || |        |  || |  |   ||    |   ||   ||||  |  |  ||||||     | | | | | ||  |  ||   | | ||| ||||| || |||| |||||| ||||| ||| | |||| ||||||||| ||||||| ||| || ||||||||||| ||| ||||  | ||||||||||| ||||
ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaata--gagatattaatccttttt-tttttttctgttttttggtatatattg-cagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
















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|22541350|gb|BU091193.1|BU091193
EST:     GCATCCCGGCCAGCCAACCGCCACCTCGA-CCCTTGT-NACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|117557759|gb|EG702144.1|EG702144
EST:     GCCAACTGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|117557758|gb|EG702143.1|EG702143
EST:     GCCAACTGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|151404848|gb|EV274662.1|EV274662
EST:     GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|117557760|gb|EG702145.1|EG702145
EST:     GCCAACTGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|22933590|gb|BU550729.1|BU550729
EST:     GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
EST: gi|22525592|gb|BU084403.1|BU084403
EST:     GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCG                         TCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG
genomic: GCATCCCGGCCAGCCAACCGCCACCTCGACCCCTTGTCGACTTTCATCCGgtaaatttca ... gttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattgcaaggttaatctaacgtgtgtgtgtgtgggtcgtgtgttgttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGGCTGCCACTACCTCTTGGCCTTAAAGCTCCAGCACTTGATGGTGTAATGG
              atctaac  putative branch site (score: 2)
                                           ttgtttt  putative PPT
           ttaatctaa  TA-rich tract