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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgatctttcacatacttgtcctttcatttgaagcatcggccattttgactagaagcctaactcttcactgtttaatttccggttcttatgtggttacttaataagatttctctgaaattgtttgtctatgcgacaggctgataatttatgtgaaattttctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGGAATATTCAGAGATTGACCCAGACATACTTGACCCTTTCTCTCCATGATA

Basic information

species Glycine max
transcript GLYMA19G22450.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22450.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os08g02550.1 (Oryza sativa), 3'ss of exon 7
----gtacgatcttt--cacatacttgtcctttcatttgaagcatcggccattt--tgactagaagcctaactc--ttcactgtttaatttccggttcttatgtggttacttaataagatttctctgaaa-------ttgtttgtctatgcga-caggctgataatttatgtgaaatt-----ttctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGGAATATTCAGAGATTGACCCAGACATACTTGACCCTTTCTCTCCATGATA
    |||    ||||  ||  | ||||  ||  | |    |  ||   | ||||  | |  || | |   |||    |  || | || ||  ||         |  ||   |    || | |   ||  |       ||||   | |||  || |   ||  |   ||   |    ||     |||| ||||||||||||||||||||||| || || || ||  | || || ||||| ||||| || || ||||| ||||| ||||| |||||||| ||||| ||  | ||||
gtgagtatttcctttgtcagttgcttgagctgccctccttactat-atctatttccttatcaggaactgtacttaagttgctatctacttgacgtgctacgcattattttgttgacagttctgcatggcaaacccatttgtagatttatctgaaccacctccttcctttcctctgttttttttttctttttcagGACAACAACCTTGGACTTGTGAAGCAAGTGCTCTCCTCAATGTACAAGCGAAACATCCAGAGGTTGACACAGACCTACTTGACTCTTTCGCTTGAGGATA

upper sequence: GLYMA19G22450.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0171g00270.t01 (Vitis vinifera), 3'ss of exon 7
--gtacgatctttcacatacttgtcctttcatttgaagcatcggccattttgactagaagccta-actcttcactgtttaatttccggttcttatgtggttacttaataagatttctctgaaattgtttgtct-atgcgacaggctgataatttatgtgaaattttctgtt-tcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGGAATATTCAGAGATTGACCCAGACATACTTGACCCTTTCTCTCCATGATA
  |     ||| |||  ||||  |  ||   | | |       | |||     |  ||   |||  ||    ||      | | |   ||   |  ||||  ||| ||   |      ||||  ||| | |   | || | |  |||| ||  |||| |   |||| |  | ||||||||| || |||||| |||| || |||||||||||||| ||||||||||| ||||| ||||||||||| |||||||||||||| || || || || ||||
gtgagttttctatcatttactcattattc--tctaactatcttgacatagaatcctgatatctatgcttgaaacaaacagagtgcatatttgaaactggt--cttcatggtaaaatagtgaagctgtctcttggaagctaaaatctgaaaagctatgagtttttttttcctctcagGACAAGAATCTTGGATTGGTGAAGCAGGTTGTATCATCTATGTATAAGCGCAATATCCAGAGATTGACTCAGACATACTTGACTCTCTCACTTCAAGATA
















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|58018528|gb|CX705270.1|CX705270
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
EST: gi|7693028|gb|AW761126.1|AW761126
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
EST: gi|51336626|gb|CO980492.1|CO980492
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
EST: gi|8285792|gb|BE023351.1|BE023351
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
EST: gi|151404750|gb|EV274564.1|EV274564
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAAT
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAAT
EST: gi|19453514|gb|BM954924.1|BM954924
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
EST: gi|7693232|gb|AW761328.1|AW761328
EST:     TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCT                         GACAGCAGCCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG
genomic: TTGAAGAACTAGAGGCATATGCCAGGGCAAATGCAGAGAAGTTTGAATCTgtacgatctt ... tctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattgtttgtctatgcgacaggctgataatttatgtgaaattttctgtttcagGACAACAACCTTGGACTGGTTAATCAGGTTGTATCATCCATGTATAAGCGGAATATTCAGAGATTGACCCAGACATACTTGACCCTTTCTCTCCATGATA
                      ggctgat  putative branch site (score: 4)
                                          ttttctgtttc  putative PPT
                         tgataatttatgtgaa  TA-rich tract