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Structure of the BC4V2_0_00086 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 -600 to -481 relative to the ATG.

Detailed description of sequence elements (putative binding sites)
Motif appears at these position(s): 
AAATATT|CCCACCT|TCATTAA (BC4V2_0_00086) in sense dir., at pos. -491, p: 5.22e-07
This motif matches the following known binding sites:
  • AS$AREB6_14 - artificial sequence., bound by: ZEB (1124 AA)
  • PV$PAL2_02 - PAL2 (phenylalanine ammonia-lyase 2), bound by: RF2a
  • see details about this motif
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    • Structure #2

    Motif appears at position -520 to -1 relative to the ATG AND
    motif appears at position -840 to -321 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    ACTCCAC|CATTTCCACACAAAA|TTCACAT (BC4V2_0_00086) in sense dir., at pos. -74, p: 1.05e-07

    This motif does not match any known binding sites.

    Motif appears at these position(s): 
    CCTCCTT|CAATCACTAAAATTG|AATATAA (BC4V2_0_00086) in sense dir., at pos. -333, p: 8.27e-07
    This motif matches the following known binding sites:
  • PARS$PR12_01 - PR1-2 (pathogen related protein 1-2), bound by: WRKY1, WRKY2, WRKY3
  • CHICK$HOX14_01 - Chox-1.4, bound by: HOXA4
  • see details about this motif
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    • Structure #3

    Motif appears in sense direction at position -1000 to -881 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    AATGTCA|GGCTACCCATTAG|AAAATAT (BC4V2_0_00086) in sense dir., at pos. -952, p: 1.85e-07

    This motif does not match any known binding sites.

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

    • Structure #4

    Motif appears in nonsense direction at position -480 to -201 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    TTGAATT|GAATATCATCGAGTG|TACCATC (BC4V2_0_00086) in nonsense dir., at pos. -435, p: 8.86e-07

    This motif does not match any known binding sites.

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

    • Structure #5

    Motif appears in sense direction at position -800 to -161 relative to the ATG AND
    motif appears in sense direction at position -720 to -601 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    GTCGATT|GAGGCAGGTGC|ATTACCA (BC4V2_0_00086) in sense dir., at pos. -688, p: 3.74e-07
    This motif matches the following known binding sites:
  • DROME$DDC_15, bound by: BR
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    • Structure #6

    Motif appears at position -1000 to -281 relative to the ATG AND
    motif appears in sense direction at position -1000 to -761 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    GGTGATT|TTCCAGATGG|AATTGAA (BC4V2_0_00086) in sense dir., at pos. -984, p: 8.71e-07
    This motif matches the following known binding sites:
  • HS$P53_03 - p53, bound by: Pax-2, Pax-5, Pax-8
  • HS$A1ANTR_01 - AAT (alpha1-antitrypsin), bound by: HNF-4alpha1, HNF-4alpha1, HNF-4alpha2, LF-A1
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.
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