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Table 3 Matrix similarity scores for putative binding sites

From: New insights into SRY regulation through identification of 5' conserved sequences

Region Site Bovine Human Goat Porcine Mean
A HOXF 0.96 0.988 0.947 - 0.965
  GATA (a) 0.924 0.963 0.956 - 0.948
  GATA (b) 0.944 0.972 0.916 - 0.944
  PITI 0.942 0.93 0.945 - 0.939
  GFI1 0.96 0.911 0.918 - 0.930
  HOXC 0.911 0.922 0.951 - 0.928
  OCTP 0.922 0.875 0.968 - 0.922
  EVI1 0.958 0.86 0.904 - 0.907
  TBPF 0.923 0.813 0.933 - 0.890
B RBPF 0.944 0.943 0.961 - 0.949
  RORA 0.958 0.983 0.897 - 0.946
  HAML 0.943 0.935 0.943 - 0.940
  HOXF 0.884 0.889 0.884 - 0.886
  MEF2 0.905 0.885 0.775 - 0.855
  SRFF 0.697 0.717 0.681 - 0.698
C MZF1 1.000 - 1.000 0.995 0.998
  ZFHX 0.984 - 0.984 0.984 0.984
  ETSF 0.983 0.982 0.983 - 0.983
  FKHD 0.962 - 0.962 0.962 0.962
  GATA 0.973 0.936 0.973 0.954 0.959
  IRFF 0.964 - 0.887 0.945 0.932
  CREB 0.938 - 0.938 0.914 0.930
  HOXF 0.975 0.870 0.975 0.857 0.919
  BRNF 0.946 - 0.906 0.899 0.917
  PARF 0.940 - 0.864 0.921 0.908
  ETSF 0.880 - 0.890 0.925 0.898
  OCT1 0.905 - 0.894 0.894 0.898
  SORY 0.879 - 0.879 0.927 0.895
  PLAG 0.900 - 0.882 0.887 0.890
  BRNF 0.810 - 0.810 0.916 0.845
  LHXF 0.839 0.846 0.839 0.849 0.843
  OCT1 0.846 - 0.841 0.820 0.836
  GZF1 0.761 0.858 0.858 - 0.826
  HNF1 0.801 - 0.803 0.819 0.808
  PAX6 0.778 - 0.769 0.781 0.776
D SORY - 0.991 0.987 0.986 0.988
  MOKF 0.983 0.983 0.983 - 0.983
  HOMF 0.989 0.950 0.989 - 0.976
  SATB 0.958 - 0.958 0.967 0.961
  CLOX 0.948 0.967 0.948 - 0.954
  CDXF 0.980 0.855 0.980 0.980 0.949
  PARF 0.921 - 0.921 0.995 0.946
  RBIT 0.924 0.965 0.924 - 0.938
  NKXH 0.933 0.928 0.933 - 0.931
  HOXF 0.923 - 0.923 0.942 0.929
  NKXH 0.946 - 0.835 1.000 0.927
  FKHD 0.922 - 0.922 0.909 0.918
  NFKB 0.864 0.992 0.841 0.947 0.911
  CREB 0.918 - 0.918 0.893 0.910
  MEF2 - 0.890 0.791 0.991 0.891
  OCT1 0.849 0.954 0.849 - 0.884
  OCT1 0.873 0.893 0.873 - 0.880
  SRFF 0.844 0.855 0.918 0.884 0.875
  HNF1 0.943 0.854 0.828 - 0.875
  PLZF - 0.883 0.874 0.866 0.874
  PARF 0.860 - 0.865 0.897 0.874
  OCT1 0.862 - 0.856 0.899 0.872
  FKHD 0.867 0.861 0.836 0.919 0.871
  PARF 0.867 - 0.867 0.867 0.867
  BRNF 0.902 0.785 0.902 - 0.863
  CDXF 0.872 0.850 0.870 0.860 0.863
  MYT1 0.875 - 0.775 0.875 0.842
  BRNF 0.805 0.892 0.819 - 0.839
  CREB 0.844 - 0.833 0.833 0.837
  BRNF 0.796 - 0.807 0.889 0.831
  BRNF 0.790 - 0.790 0.898 0.826
  OCT1 0.790 - 0.783 - 0.787
  1. List of matrix similarity scores (the similarity of each putative site to the canonical binding site for the relevant transcription factor) generated by MatInspector software for each putative transcription factor binding site in each species, for each region of homology. Matrix scores are ranked from the highest to lowest mean score.
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BMC Molecular Biology

ISSN: 1471-2199

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