[New weight matrices]
[Weight matrices moved to other families]

[Matrix families renamed] [Matrix families moved to other groups]

[Changes in previous release] [View all matrices]

[Matrix families renamed] [Matrix families moved to other groups]

[Changes in previous release] [View all matrices]

Matrix Family Library Version 6.1 (June 2006) contains **705
weight matrices in 294 families** classified into the following groups:

**Fungi**(47 matrices in 35 families)**Insects**(42 matrices in 29 families)**Plants**(136 matrices in 62 families)**Vertebrates**(457 matrices in 150 families)**Miscellaneous**(12 matrices in 11 families)**Other Functional Elements**(11 matrices in 7 families)

- Homo sapiens: 664
- Mus musculus: 649
- Rattus norvegicus: 548
- Gallus gallus: 251
- Macaca mulatta: 216
- Danio rerio: 129
- Bos taurus: 83
- Pan troglodytes: 77
- Canis familiaris: 58

Family | Family Information | Matrix Name | Matrix Information |
---|---|---|---|

V$ARID | AT rich interactive domain factor | V$MRF2.01 | Modulator recognition factor 2 (MRF2, ARID5B) |

V$E2FF | E2F-myc activator/cell cycle regulator | V$E2F1_DP1.01 | E2F-1/DP-1 heterodimeric complex |

V$E2F1_DP2.01 | E2F-1/DP-2 heterodimeric complex | ||

V$E2F4_DP1.01 | E2F-4/DP-1 heterodimeric complex | ||

V$E2F4_DP2.01 | E2F-4/DP-2 heterodimeric complex | ||

V$RB_E2F1_DP1.01 | RB/E2F-1/DP-1 heterotrimeric complex | ||

V$EBOX | E-box binding factors | V$USF.04 | Upstream stimulating factor 1/2 |

V$ETSF | Human and murine ETS1 factors | V$GABPB1.01 | GA repeat binding protein, beta 1) |

V$SPI1_PU1.01 | Spleen focus forming virus (SFFV) proviral integration oncogene Spi1/transcription factor PU.1 | ||

V$SPI1_PU1.02 | Spleen focus forming virus (SFFV) proviral integration oncogene Spi1/transcription factor PU.1 | ||

V$SPIB.01 | Spi-B transcription factor (Spi-1/PU.1 related) | ||

V$FKHD | Fork head domain factors | V$FHXA.01 | Fork head homologous X binds DNA with a dual sequence specificity (FHXA and FHXB) |

V$FHXB.01 | Fork head homologous X binds DNA with a dual sequence specificity (FHXA and FHXB) | ||

V$GCMF | Chorion-specific transcription factors with a GCM DNA binding domain | V$GCM1.01 | Glial cells missing homolog 1, chorion-specific transcription factor GCMa |

V$GFI1 | Growth factor independence transcriptional repressor | V$GFI1.02 | Growth factor independence 1 |

V$GREF | Glucocorticoid responsive and related elements | V$ARE.02 | Androgene receptor binding site |

V$HOXF | Factors with moderate activity to homeo domain consensus sequence | V$NANOG.01 | Homeobox transcription factor Nanog |

V$IRFF | Interferon regulatory factors | V$IRF4.02 | Interferon regulatory factor 4 |

V$NFAT | Nuclear factor of activated T-cells | V$NFAT5.01 | Nuclear factor of activated T-cells 5 |

V$PERO | Peroxisome proliferator-activated receptor | V$PPAR_RXR.01 | PPAR/RXR heterodimers |

V$PPAR_RXR.02 | PPAR/RXR heterodimers | ||

V$PPAR | Peroxisome proliferative activated receptor homodimers | V$PPARG.01 | Pal3 motif, bound by a PPAR-gamma homodimer |

V$PRDF | Positive regulatory domain I binding factor | V$BLIMP1.01 | Transcriptional repressor B lymphocyte-induced maturation protein-1 (Blimp-1, prdm1) |

V$PTF1 | Pancreas transcription factor 1, heterotrimeric transcription factor | V$PTF1.01 | PTF1 binding sites are bipartite with an E-box and a TC-box (RBP-J/L) spaced one helical turn apart |

V$PURA | Pur-alpha binds both single-stranded and douple-stranded DNA in a sequence-specific manner | V$PURALPHA.01 | Purine-rich element binding protein A |

V$RU49 | Zinc finger transcription factor RU49, zinc finger proliferation 1 - Zipro1 | V$RU49.01 | Zinc finger transcription factor RU49 (zinc finger proliferation 1 - Zipro 1). RU49 exhibits a strong preference for binding to tandem repeats of the minimal RU49 consensus binding site. |

V$RUSH | RING finger motifs that bind to the uteroglobin promoter. RUSH nucleophosphoproteins contain regions of homology with members of the SWI/SNF superfamily of DNA-dependent helicases/ATPases | V$SMARCA3.01 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 3 |

V$SMARCA3.02 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 3 | ||

V$SORY | SOx/sRY-sex/testis determinig and related HMG box factors | V$HMGA.01 | HMGA family of architectural transcription factors (HMGA1, HMGA2) |

V$TEAF | TEA/ATTS DNA binding domain factors | V$TEAD.01 | TEA domain-containing factors, transcriptional enhancer factors 1,3,4,5 |

V$TFII | GTF2I repeat domain-containing factors | V$GTF3R4.01 | GTF2I-like repeat 4 of GTF3 |

V$TFII-IR4.01 | GTF2I repeat 4 of the general transcription factor II, i (GTF2I) | ||

V$THAP | THAP domain containing protein | V$THAP1.01 | THAP domain containing, apoptosis associated protein |

Family | Family Information | Matrix Name | Matrix Information |
---|---|---|---|

P$CGCG | Calmodulin binding / CGCG box binding proteins | P$OSCBT.01 | Oryza sativa CaM-binding transcription factor |

P$GAGA | GAGA elements | P$BPC.01 | (GA)n/(CT)n binding proteins (GBP, soybean; BBR, barley) |

P$HMGF | High mobility group factors | P$HMG_IY.02 | High mobility group I/Y-like protein isolated from pea |

P$MYBL | MYB-like proteins | P$NTMYBAS1.01 | Anther-specific myb gene from tobacco |

P$MYBS | MYB proteins with single DNA binding repeat | P$HVMCB1.01 | Hordeum vulgare Myb-related CAB-promoter-binding protein 1 |

Family | Family Information | Matrix Name | Matrix Information |
---|---|---|---|

I$DELF | Drosophila neuronal cis element binding factor | I$GRH.01 | Grainyhead transcription factor |

I$DESG | Drosophila escargot factor | I$ESG.01 | C2H2-type zinc finger protein escargot |

I$DRIF | Dead ringer factor | I$DRI.01 | Dead ringer gene of Drosophila melanogaster |

- V$XBP1.01 moved from V$EBOR to V$CREB
- V$DELTAEF1.01 moved from V$EBOR to V$ZFHX
- V$SIP1.01 moved from V$EBOR to V$ZFHX
- V$DEC1.01 moved from V$HIFF to V$HESF
- V$DEC2.01 moved from V$HIFF to V$HESF
- V$HLF.01 moved from V$TEAF to V$PARF
- V$TEF_HLF.01 moved from V$TEAF to V$PARF
- V$TEF.01 moved from V$TEAF to V$PARF
- V$VBP.01 moved from V$VBPF to V$PARF
- V$TTF1.01 moved from V$TTFF to V$NKXH
- V$SREBP.01 moved from V$EBOX to V$SREB
- V$SREBP.02 moved from V$EBOX to V$SREB
- V$SREBP.03 moved from V$EBOX to V$SREB
- V$PAX9.01 moved from V$PAX5 to V$PAX9
- P$PIF3.01 moved from P$GBOX to P$MYCL
- P$OSBHLH66.01 moved from P$GBOX to P$MYCL

**V$LTUP**(Lentiviral TATA upstream element)**V$MINI**(Muscle initiator)

**V$BEL1**(Bel-1 similar region)**V$E2TF**(Papillioma virus E2 transcriptional activator)**V$RCAT**(Retroviral CCAAT binding factors)**V$REBV**(Epstein-Barr virus transcription factor R)

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