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Structure of the BC4V2_0_01939 regulatory region

Listed are 6 possible structures of the regulatory region inferred using yakA- pufA- gene expression data.

Structure #1

Motif appears in sense direction at position -720 to -161 relative to the ATG.

Detailed description of sequence elements (putative binding sites)
Motif appears at these position(s): 
TATCAAG|CGCAACAAA|TAAATTA (BC4V2_0_01939) in sense dir., at pos. -637, p: 1.09e-06
This motif matches the following known binding sites:
  • Y$ERG11_03 - ERG11 (lanosterol 14alpha-demethylase)
  • HT1$HTLV1_23 - HTLV-I (human T-cell lymphotropic virus type I), bound by: c-Myb
  • see details about this motif
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    • Structure #2

    Motif appears in sense direction at position -560 to -441 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    AAAATCA|CAAAACACACCACC|TTAAAAA (BC4V2_0_01939) in sense dir., at pos. -499, p: 8.54e-08
AAAAAAA|AAATACAAACCACC|ACCAATC (BC4V2_0_01939) in sense dir., at pos. -473, p: 4.08e-07

    This motif does not match any known binding sites.

  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #3

    Motif appears in sense direction at position -480 to -401 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    AAAAAAA|TACAAACCACCACC|AATCAGT (BC4V2_0_01939) in sense dir., at pos. -470, p: 1.13e-09

    This motif does not match any known binding sites.

  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #4

    Motif appears at position -1000 to -241 relative to the ATG AND
    motif appears in sense direction at position -920 to -561 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    AGCACCA|CCCCTC|TCCTGAA (BC4V2_0_01939) in nonsense dir., at pos. -578, p: 1.24e-06
    This motif matches the following known binding sites:
  • HS$RANTES_03 - RANTES (Regulated upon Activation, Normal T cell Expressed and Secreted), bound by: p50
  • CHICK$ACCA_01 - ACC-a (acetyl-CoA carboxylase alpha), bound by: RXR-alpha, T3R-alpha
  • see details about this motif
    • Motif appears at these position(s): 
    TTCAGGA|GAGGGGTG|GTGCTAT (BC4V2_0_01939) in sense dir., at pos. -578, p: 5.6e-08
    This motif matches the following known binding sites:
  • AT$SPA1_01 - SPA1 (phytochrome A supressor), bound by: PIF3
  • DROME$SO_05, bound by: toy
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #5

    Motif appears at position -1000 to -41 relative to the ATG AND
    motif appears in sense direction at position -920 to -601 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    ATATCAA|GCGCAAC|AAATAAA (BC4V2_0_01939) in sense dir., at pos. -638, p: 1.76e-06
    This motif matches the following known binding sites:
  • DROME$HB_15, bound by: Tll
  • AS$PABF1_43 - artificial sequence., bound by: ABF1
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #6

    Motif appears at position -520 to -81 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    ATAATAA|TCAGCAACAAA|ATAACAA (BC4V2_0_01939) in sense dir., at pos. -427, p: 2.83e-07

    This motif does not match any known binding sites.

  • Look at genes with similar expression patterns and regulatory domain structure.
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