About Enhancer
| Enhancer ID: | E_02_0923 |
| Species: | mouse |
| Position : | chr5:28476034-28479024   |
| Biosample name: | |
| Experiment class : | Low+High throughput |
| Enhancer type: | Enhancer |
| Disease: | -- |
| Pubmed ID: | 24157522 |
| Enhancer experiment: | RT-PCR,ChIP-seq,Transient Transfection Assay,Luciferase Reporter Assay,3C,DNaseI-seq |
| Enhancer experiment description: | The ChIP-seq data of the ENCODE project show that H3K4me1, but not H3K4me3, marks all four DNaseI HS sites in the adult lung.To examine whether each of the DNase I HS sites is responsible for upregulating the expression of Shh, we employed a transgenic reporter assay using BAC clones (Figs. 1A and 3A). |
About Target gene
| Target gene : | Shh(HHG1,HLP3,HPE3,MCOPCB5,SMMCI,ShhNC,TPT,TPTPS) |
| Strong evidence: | 3C |
| Less strong evidence: | Luciferase Reporter Assay |
| Target gene experiment description: | To determine whether SLGE physically interacts with the Shh promoter in association with transcriptional activity, we conducted a 3C assay, which has been used to measure associations between two genomic regions. Assessment of the functional properties of SLGE by 3C and luciferase assays. |
About TF
| TF name : | Rbfox3(Fox-3,Hrnbp3,NeuN,Neuna60)Socs1(Cish1,Cish7,JAB,SOCS-1,SSI-1) |
| TF experiment: | DNaseI-seq |
| TF experiment description: | Putative binding sites for Fox transcription factors and STAT are found in the SLGE.In human cancer cell lines, including Caco-2, putative Fox- and STAT-binding sites are found in some of the DNase I HS sites around the SHH CDS. |
About Function
| Enhancer function : | Shh expression in the endodermal epithelial lining, which is enabled by the coordinated actions of the Enhancers, is necessary for proper endodermal development. |
| Enhancer function experiment: | RT-PCR,Luciferase Reporter Assay,3C |
| Enhancer function experiment description: |
We identified a novel, less-conserved cis-regulatory element for Shh expres_x005f_x0002_sion in the esophageal epithelium, as well as in the lung and intestinal epithelium, in a region 100 Kb upstream of the Shh CDS. The new element compensates for the Enhancer activi_x0002_ties of the three previously identified Enhancers, and the combined activities of all four Enhancers permit the seamless Shh expression in the epithelial linings of the whole endoder_x0002_mal tissues in the mouse embryo. |
About SNP
| SNP ID: | -- |
Upstream Pathway Annotation of TF
Enhancer associated network
The number on yellow line represents the distance between enhancer and
target gene