Variant report
Variant | rs35680343 |
---|---|
Chromosome Location | chr4:165953134-165953135 |
allele | G/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:5)
- CpG islands (count:183)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:5 , 50 per page) page:
1
No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
---|---|---|---|---|---|---|
1 | E2F6 | chr4:165952935-165953316 | H1-hESC | embryonic stem cell: | n/a | chr4:165953095-165953102 chr4:165953095-165953102 chr4:165953095-165953102 chr4:165953286-165953293 chr4:165953094-165953106 |
2 | MAX | chr4:165953018-165953245 | H1-hESC | embryonic stem cell: | n/a | n/a |
3 | E2F6 | chr4:165952807-165953333 | H1-hESC | embryonic stem cell: | n/a | chr4:165953095-165953102 chr4:165953095-165953102 chr4:165953095-165953102 chr4:165953286-165953293 chr4:165953094-165953106 |
4 | MAX | chr4:165952984-165953279 | H1-hESC | embryonic stem cell: | n/a | n/a |
5 | GABPA | chr4:165952963-165953325 | K562 | blood: | n/a | n/a |
No. | Chromosome Location | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr4:165953129-165953179 | GM12878 | blood: | n/a |
2 | chr4:165953100-165953150 | IMR90 | lung: | fetal |
3 | chr4:165953100-165953150 | CMK | blood: | n/a |
4 | chr4:165953129-165953179 | HRPEpiC | eye: | n/a |
5 | chr4:165953129-165953179 | HAEpiC | amniotic membrane: | n/a |
6 | chr4:165953131-165953181 | T-47D | breast: | n/a |
7 | chr4:165953129-165953179 | CMK | blood: | n/a |
8 | chr4:165953100-165953150 | NB4 | blood: | n/a |
9 | chr4:165953129-165953179 | GM12891 | blood: | n/a |
10 | chr4:165953129-165953179 | NB4 | blood: | n/a |
11 | chr4:165953131-165953181 | SK-N-SH_RA | brain: | n/a |
12 | chr4:165953129-165953179 | NH-A | brain: | n/a |
13 | chr4:165953100-165953150 | NT2-D1 | testis: | n/a |
14 | chr4:165953131-165953181 | GM12892 | blood: | n/a |
15 | chr4:165953100-165953150 | LNCaP | prostate: | n/a |
16 | chr4:165953131-165953181 | HMEC | breast: | n/a |
17 | chr4:165953129-165953179 | HMEC | breast: | n/a |
18 | chr4:165953129-165953179 | ProgFib | skin: | n/a |
19 | chr4:165953129-165953179 | MCF10A-Er-Src | breast: | n/a |
20 | chr4:165953100-165953150 | BE2_C | brain: | n/a |
21 | chr4:165953131-165953181 | NHDF-neo | bronchial: | n/a |
22 | chr4:165953131-165953181 | HEEpiC | esophagus: | n/a |
23 | chr4:165953100-165953150 | AG09319 | gingival: | n/a |
24 | chr4:165953100-165953150 | SK-N-SH_RA | brain: | n/a |
25 | chr4:165953100-165953150 | SAEC | small airway: | n/a |
26 | chr4:165953131-165953181 | HPAEpiC | pulmonary alveolar: | n/a |
27 | chr4:165953100-165953150 | HRCEpiC | kidney: | n/a |
28 | chr4:165953131-165953181 | U87 | brain: | n/a |
29 | chr4:165953131-165953181 | IMR90 | lung: | fetal |
30 | chr4:165953100-165953150 | HL-60 | blood: | n/a |
31 | chr4:165953129-165953179 | PFSK-1 | brain: | n/a |
32 | chr4:165953100-165953150 | HCF | heart: | n/a |
33 | chr4:165953129-165953179 | HRE | kidney: | n/a |
34 | chr4:165953100-165953150 | HepG2 | liver: | n/a |
35 | chr4:165953100-165953150 | HAEpiC | amniotic membrane: | n/a |
36 | chr4:165953131-165953181 | LNCaP | prostate: | n/a |
37 | chr4:165953131-165953181 | GM19239 | blood: | n/a |
38 | chr4:165953100-165953150 | Caco-2 | colon: | n/a |
39 | chr4:165953100-165953150 | NH-A | brain: | n/a |
40 | chr4:165953131-165953181 | CMK | blood: | n/a |
41 | chr4:165953100-165953150 | Hela-S3 | cervix: | n/a |
42 | chr4:165953129-165953179 | SK-N-MC | brain: | n/a |
43 | chr4:165953129-165953179 | PrEC | prostate: | n/a |
44 | chr4:165953129-165953179 | SK-N-SH | brain: | n/a |
45 | chr4:165953131-165953181 | Hepatocyte | liver: | n/a |
46 | chr4:165953131-165953181 | A549 | lung: | n/a |
47 | chr4:165953131-165953181 | AG09309 | skin: | n/a |
48 | chr4:165953131-165953181 | HNPCEpiC | eye: | n/a |
49 | chr4:165953131-165953181 | PrEC | prostate: | n/a |
50 | chr4:165953131-165953181 | MCF10A-Er-Src | breast: | n/a |
No data |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
TRIM60 | TF binding region |
TRIM60 | CpG island |
rs_ID | r2[population] |
---|---|
rs12647419 | 0.85[AMR][1000 genomes];0.90[EUR][1000 genomes] |
rs12647427 | 0.85[AMR][1000 genomes];0.90[EUR][1000 genomes] |
rs13137799 | 0.88[EUR][1000 genomes] |
rs13141887 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
rs13151735 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes] |
rs2056252 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
rs2176634 | 0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs2280327 | 0.88[EUR][1000 genomes] |
rs35449092 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
rs4690800 | 0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes] |
rs72697987 | 0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1026152 | chr4:165622244-166027447 | Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 36 gene(s) | inside rSNPs | diseases |
2 | nsv537336 | chr4:165622244-166027447 | Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 36 gene(s) | inside rSNPs | diseases |
3 | nsv1022210 | chr4:165792630-166251612 | Genic enhancers Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 46 gene(s) | inside rSNPs | diseases |
4 | nsv537337 | chr4:165792630-166251612 | Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 46 gene(s) | inside rSNPs | diseases |
5 | nsv880382 | chr4:165793001-165964290 | ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 31 gene(s) | inside rSNPs | diseases |
6 | esv2757965 | chr4:165801816-165976350 | Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 27 gene(s) | inside rSNPs | diseases |
7 | esv2759299 | chr4:165801816-165976350 | Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 27 gene(s) | inside rSNPs | diseases |
8 | nsv1015970 | chr4:165852926-165973078 | Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
9 | nsv1021905 | chr4:165852926-166212878 | Weak transcription Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 29 gene(s) | inside rSNPs | diseases |
10 | nsv830140 | chr4:165855999-165956612 | Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
11 | nsv533191 | chr4:165879671-166171638 | Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 22 gene(s) | inside rSNPs | diseases |
12 | nsv980415 | chr4:165945694-165954687 | Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS | TF binding regionCpG island | 2 gene(s) | inside rSNPs | n/a |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr4:165947800-165953200 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
2 | chr4:165952400-165953800 | Active TSS | Placenta | Placenta |