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Structure of the JC1V2_0_01880 regulatory region

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

Structure #1

Motif appears at position -880 to -641 relative to the ATG.

Detailed description of sequence elements (putative binding sites)
Motif appears at these position(s): 
ATCAAAT|AGAAAACGTTT|ATTATCT (JC1V2_0_01880) in sense dir., at pos. -743, p: 4.12e-06

This motif does not match any known binding sites.

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

    • 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): 
    ATTAAAA|CACACACATACAATA|AATTTTT (JC1V2_0_01880) in sense dir., at pos. -146, p: 1.05e-07

    This motif does not match any known binding sites.

    Motif appears at these position(s): 
    GAAAGTG|AGATCTCTAATATGG|AGTAACC (JC1V2_0_01880) in nonsense dir., at pos. -801, 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
  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #3

    Motif appears at position -880 to -161 relative to the ATG AND
    motif appears at position -920 to -401 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    TGCTGCA|ACACCACC|ACAACCA (JC1V2_0_01880) in nonsense dir., at pos. -860, p: 2.2e-07
    This motif matches the following known binding sites:
  • CHICK$ACRA_04 - AChR alpha (acetylcholine receptor, alpha-subunit), bound by: MyoD
  • BPV1$BPV1_18 - BPV-1 (bovine papilloma virus-1), bound by: E2
  • see details about this motif
    • Motif appears at these position(s): 
    ATAAGAT|GCTGCAACACC|ACCACAA (JC1V2_0_01880) in nonsense dir., at pos. -857, p: 3.39e-08

    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 -960 to -81 relative to the ATG AND
    motif appears anywhere in the regulatory region.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    TGCTGCA|ACACCACC|ACAACCA (JC1V2_0_01880) in nonsense dir., at pos. -860, p: 2.2e-07
    This motif matches the following known binding sites:
  • CHICK$ACRA_04 - AChR alpha (acetylcholine receptor, alpha-subunit), bound by: MyoD
  • BPV1$BPV1_18 - BPV-1 (bovine papilloma virus-1), bound by: E2
  • see details about this motif
    • Motif appears at these position(s): 
    TATGGTA|TCCATGATGGT|TATCTCC (JC1V2_0_01880) in sense dir., at pos. -610, p: 4.03e-07
    This motif matches the following known binding sites:
  • NEUCR$CYS14_03 - cys-14 (sulfate permease II), bound by: CYS3
  • MOUSE$WAP_07 - WAP (whey acidic protein), bound by: MPBF, NF-1
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #5

    Motif appears at position -760 to -161 relative to the ATG AND
    motif appears in sense direction at position -760 to -401 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    TATCTAC|CCTTTGTG|AATTAAA (JC1V2_0_01880) in sense dir., at pos. -723, p: 1.41e-06
    This motif matches the following known binding sites:
  • XENLA$AC_04 - C-ACT (cardiac actin), bound by: EMF1, EMF2, EMF3, EMF4, Myf-5, MyoD
  • MOUSE$M2EAK_01 - Ekalpha (MHC class II Ekalpha)
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.

    • Structure #6

    Motif appears anywhere in the regulatory region AND
    motif appears anywhere in the regulatory region AND
    motif appears at position -960 to -561 relative to the ATG.

    Detailed description of sequence elements (putative binding sites)
    Motif appears at these position(s): 
    AACAATT|TGGGTAAC|ACAACCA (JC1V2_0_01880) in sense dir., at pos. -685, p: 2.59e-06
    This motif matches the following known binding sites:
  • DROME$DPP_49, bound by: Dl
  • RAT$FABPI_02 - FABPI (intestinal fatty acid binding protein), bound by: C/EBPalpha
  • see details about this motif
    • Motif appears at these position(s): 
    GTAACAA|TTTGGGTAAC|ACAACCA (JC1V2_0_01880) in sense dir., at pos. -687, p: 6.86e-07
    This motif matches the following known binding sites:
  • AT$ROT3_01 - rot3 (P450 gene), bound by: ANT
  • DROME$HSP23_06, bound by: BR
  • see details about this motif
  • Look at genes with similar expression patterns and regulatory domain structure.
    • Query for a group of genes. Learn about how the analysis was done.
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