Gene description for Ctcf
Gene name CCCTC-binding factor
Gene symbol Ctcf
Other names/aliases AW108038
Species Mus musculus
 Database cross references - Ctcf
ExoCarta ExoCarta_13018
Vesiclepedia VP_13018
Entrez Gene 13018
UniProt Q61164  
 Ctcf identified in exosomes derived from the following tissue/cell type
Mast cells 17486113    
 Gene ontology annotations for Ctcf
Molecular Function
    transcription cis-regulatory region binding GO:0000976 ISO
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 IBA
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 IEA
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 ISO
    cis-regulatory region sequence-specific DNA binding GO:0000987 IDA
    transcription coregulator binding GO:0001221 IEA
    transcription coregulator binding GO:0001221 ISO
    DNA-binding transcription repressor activity, RNA polymerase II-specific GO:0001227 IEA
    DNA-binding transcription repressor activity, RNA polymerase II-specific GO:0001227 ISO
    DNA-binding transcription activator activity, RNA polymerase II-specific GO:0001228 IBA
    DNA binding GO:0003677 IDA
    chromatin binding GO:0003682 IDA
    DNA-binding transcription factor activity GO:0003700 ISO
    protein binding GO:0005515 IPI
    chromatin insulator sequence binding GO:0043035 IEA
    chromatin insulator sequence binding GO:0043035 ISO
    sequence-specific DNA binding GO:0043565 IDA
    sequence-specific DNA binding GO:0043565 ISO
    metal ion binding GO:0046872 IEA
    DNA-binding transcription factor binding GO:0140297 ISO
    chromatin loop anchoring activity GO:0140587 IEA
    chromatin loop anchoring activity GO:0140587 ISO
    sequence-specific double-stranded DNA binding GO:1990837 ISO
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 IMP
    negative regulation of transcription by RNA polymerase II GO:0000122 ISO
    in utero embryonic development GO:0001701 IMP
    chromatin organization GO:0006325 IMP
    DNA methylation-dependent constitutive heterochromatin formation GO:0006346 IMP
    regulation of DNA-templated transcription GO:0006355 IDA
    regulation of transcription by RNA polymerase II GO:0006357 IBA
    mitochondrion organization GO:0007005 IMP
    chromosome segregation GO:0007059 IEA
    heart development GO:0007507 IMP
    negative regulation of cell population proliferation GO:0008285 ISO
    negative regulation of cell population proliferation GO:0008285 ISS
    gene expression GO:0010467 IMP
    positive regulation of gene expression GO:0010628 IMP
    positive regulation of gene expression GO:0010628 ISO
    negative regulation of gene expression GO:0010629 IMP
    epigenetic regulation of gene expression GO:0040029 IDA
    epigenetic regulation of gene expression GO:0040029 ISO
    negative regulation of gene expression via chromosomal CpG island methylation GO:0044027 IMP
    negative regulation of DNA-templated transcription GO:0045892 ISO
    positive regulation of DNA-templated transcription GO:0045893 ISO
    positive regulation of transcription by RNA polymerase II GO:0045944 IEA
    positive regulation of transcription by RNA polymerase II GO:0045944 ISO
    cardiac muscle cell differentiation GO:0055007 IMP
    cardiac muscle cell development GO:0055013 IMP
    random inactivation of X chromosome GO:0060816 TAS
    protein localization to chromosome, centromeric region GO:0071459 ISO
    protein localization to chromosome, centromeric region GO:0071459 ISS
    genomic imprinting GO:0071514 IDA
    genomic imprinting GO:0071514 IMP
    chromatin looping GO:0140588 IDA
    chromatin looping GO:0140588 IMP
    chromatin looping GO:0140588 ISO
    positive regulation of miRNA transcription GO:1902895 ISO
Subcellular Localization
    chromosome, centromeric region GO:0000775 ISO
    chromosome, centromeric region GO:0000775 ISS
    condensed chromosome GO:0000793 IEA
    condensed chromosome GO:0000793 ISO
    dense fibrillar component GO:0001651 ISO
    granular component GO:0001652 ISO
    male germ cell nucleus GO:0001673 IDA
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IDA
    nucleus GO:0005634 ISO
    nucleoplasm GO:0005654 IEA
    nucleoplasm GO:0005654 ISO
    nucleolus GO:0005730 IEA
    nucleolus GO:0005730 ISO
 Experiment description of studies that identified Ctcf in exosomes
1
Experiment ID 15
MISEV standards
EM
Biophysical techniques
CD63
Enriched markers
Negative markers
Particle analysis
Identified molecule mrna
Identification method Microarray
PubMed ID 17486113    
Organism Mus musculus
Homo sapiens
Experiment description Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells.
Authors "Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, Lotvall JO"
Journal name NCB
Publication year 2007
Sample Mast cells
Sample name MC9
Bone marrow-derived mast cells
HMC-1
Isolation/purification methods Filtration
Ultracentrifugation
Sucrose density gradient
Flotation density 1.11-1.21 g/mL
Molecules identified in the study Protein
mRNA
miRNA
Methods used in the study Mass spectrometry [MALDI TOF]
Western blotting
Microarray
miRCURY LNA Array
 Protein-protein interactions for Ctcf
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Polr1a  
Affinity Capture-MS Mus musculus
Affinity Capture-Western Mus musculus
2 RSL1D1 26156
Affinity Capture-MS Homo sapiens
3 Eed  
Affinity Capture-MS Mus musculus
4 Fxr1 14359
Affinity Capture-MS Mus musculus
5 Zfp287  
Co-fractionation Mus musculus
6 Zfat  
Co-fractionation Mus musculus
7 Zfp62  
Co-fractionation Mus musculus
8 Zfp382  
Co-fractionation Mus musculus
9 Rbak  
Co-fractionation Mus musculus
10 CTCF  
Affinity Capture-MS Homo sapiens
11 Zbtb33  
Two-hybrid Mus musculus
12 Zfp513  
Co-fractionation Mus musculus
13 Wdr5  
Affinity Capture-MS Mus musculus
14 Prdm4  
Co-fractionation Mus musculus
15 Zfp652  
Co-fractionation Mus musculus
16 Ctcfl  
Co-fractionation Mus musculus
17 Yy1 22632
Affinity Capture-Western Mus musculus
Affinity Capture-Western Mus musculus
18 Atrx  
Affinity Capture-Western Mus musculus
19 Zfp768  
Co-fractionation Mus musculus
20 DDX21 9188
Affinity Capture-MS Homo sapiens
21 EBNA1BP2 10969
Affinity Capture-MS Homo sapiens
22 Zfp473  
Co-fractionation Mus musculus
23 Zfp710  
Co-fractionation Mus musculus
24 Zfp120  
Co-fractionation Mus musculus
25 Zfp787  
Co-fractionation Mus musculus
26 Ubtf 21429
Affinity Capture-Western Mus musculus
Affinity Capture-MS Mus musculus
Affinity Capture-Western Mus musculus
Reconstituted Complex Mus musculus
27 Cd3eap  
Affinity Capture-MS Mus musculus
28 FAU 2197
Affinity Capture-MS Homo sapiens
29 ZMYM1 79830
Affinity Capture-MS Homo sapiens
30 Polr1b  
Affinity Capture-MS Mus musculus
31 NOP2 4839
Affinity Capture-MS Homo sapiens
32 Zfp3  
Co-fractionation Mus musculus
33 Zfp697  
Co-fractionation Mus musculus
34 LLPH  
Affinity Capture-MS Homo sapiens
35 Gli3  
Co-fractionation Mus musculus
36 Zfp423  
Co-fractionation Mus musculus
37 Sall3  
Co-fractionation Mus musculus
38 Zfp37  
Co-fractionation Mus musculus
39 Prdm5  
Co-fractionation Mus musculus
40 Zfp667  
Co-fractionation Mus musculus
41 HNRNPU 3192
Affinity Capture-MS Homo sapiens
42 Polr1e  
Affinity Capture-MS Mus musculus
43 Zscan21  
Co-fractionation Mus musculus
44 Zfp58  
Co-fractionation Mus musculus
45 Glis1  
Co-fractionation Mus musculus
46 Fancd2  
Affinity Capture-MS Mus musculus
View the network image/svg+xml
 Pathways in which Ctcf is involved
PathwayEvidenceSource
Gene expression (Transcription) IEA Reactome
Generic Transcription Pathway IEA Reactome
RNA Polymerase II Transcription IEA Reactome





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