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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttgtaattagcatacatagctaaatacatggtgtaaaaagatatgtagtttccttgtgctgaaagctgacaagtaattgtttgtttgattggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG

Basic information

species Glycine max
transcript GLYMA20G33380.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33380.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G129513_T01 (Zea mays), 3'ss of exon 9
gtaaattttgtaattagcatacatagctaaatacatggtgtaaaaagata-tgtagtttccttgtgctgaaagc-tgacaagtaatt--gtttgtttgattgg-cagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG
      | |||   |  |     | || | ||   ||||||     |  | |  ||       ||   ||  ||   | || | |||  |||  | |   |   ||| | || |||| ||| || ||||||||||| ||||||||||||||||| ||  |||| || || || ||||| || |||||  | ||||||||||| || |
-----gtatgtgcctctccctgtttgcaatatgtttggtgttgcctgtcactcgagaaattaagtcaagactgcaccataatttattctgttcatatatctaaacagCGTGGAGGTGTGCTCATCCAAAAATGGGGCAGATCATCAGCTGCATCGACCGCTGTTTCGATAGTGGATGCTATTAGATCCCTCGTAACTCCTACCCCAG

upper sequence: GLYMA20G33380.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 9
--------gtaaattttgtaattagcatacatagctaaat-acatggtgtaaaaagatatgtagtttccttgtgctgaaagctgacaagtaattgtttgt--ttgat-tggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG
         | |   |  | ||||  | |  ||   |  | |||| || |   |   ||   |      ||| |    ||  ||   | |||   |      |  || |  ||||||||||||| | | ||||| |||||||| ||||| || |||||||||||| ||||||| || ||||||||||| |  ||| |||||||||| || || |
gcaatattttcagactcatgattaataaatctaataatttgacatagtctgtgattgtaatcaaacctattgggtcttaacttggtcactaaacatgaaaaatcaatgtttcagAGAGGTGGTGTGTTGATTCAGAAATGGGGGAGATCTTCTGCTGCATCAACTGCTGTGTCGATCGTTGATGCCATGAAGTCTCTAGTAACTCCCACCCCTG
















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|6455028|gb|AW185711.1|AW185711
EST:     TTAAGGATCATAAGTGGTTGGAGGAAGAGTTCACTGAAAAGGTTCAAAAG                         AGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACT
genomic: TTAAGGATCATAAGTGGTTGGAGGAAGAGTTCACTGAAAAGGTTCAAAAGgtaaattttg ... tgattggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACT
EST: gi|22539986|gb|BU089829.1|BU089829
EST:     TTAAGGATCATAAGTGGTTGGAGGAAGAGTTCACTGAAAAGGTTCAAAAG                         AGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACT
genomic: TTAAGGATCATAAGTGGTTGGAGGAAGAGTTCACTGAAAAGGTTCAAAAGgtaaattttg ... tgattggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgtagtttccttgtgctgaaagctgacaagtaattgtttgtttgattggcagAGAGGTGGTGCGCTTATTCAAAAATGGGGAAGATCATCAGCTGCATCAACTTCTGTGTCAATTGTTGATGCCATAAGATCTTTAGTAACTCCTACTCCCG
                                       tttgttt  CT-rich tract
                                 taattgttt  TA-rich tract