Variant report
Variant | rs9535849 |
---|---|
Chromosome Location | chr13:52639131-52639132 |
allele | A/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:1)
- CpG islands (count:61)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
No. | Chromosome Location | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr13:52639120-52639170 | PrEC | prostate: | n/a |
2 | chr13:52639120-52639170 | LNCaP | prostate: | n/a |
3 | chr13:52639120-52639170 | HMEC | breast: | n/a |
4 | chr13:52639120-52639170 | SK-N-MC | brain: | n/a |
5 | chr13:52639120-52639170 | HRE | kidney: | n/a |
6 | chr13:52639120-52639170 | RPTEC | kidney: | n/a |
7 | chr13:52639120-52639170 | BE2_C | brain: | n/a |
8 | chr13:52639120-52639170 | NT2-D1 | testis: | n/a |
9 | chr13:52639120-52639170 | HAEpiC | amniotic membrane: | n/a |
10 | chr13:52639120-52639170 | SKMC | muscle: | n/a |
11 | chr13:52639120-52639170 | GM12892 | blood: | n/a |
12 | chr13:52639120-52639170 | GM19239 | blood: | n/a |
13 | chr13:52639120-52639170 | IMR90 | lung: | fetal |
14 | chr13:52639120-52639170 | BJ | skin: | n/a |
15 | chr13:52639120-52639170 | SAEC | small airway: | n/a |
16 | chr13:52639120-52639170 | HUVEC | blood vessel: | n/a |
17 | chr13:52639120-52639170 | CMK | blood: | n/a |
18 | chr13:52639120-52639170 | K562 | blood: | n/a |
19 | chr13:52639120-52639170 | SK-N-SH | brain: | n/a |
20 | chr13:52639120-52639170 | HNPCEpiC | eye: | n/a |
21 | chr13:52639120-52639170 | AG09319 | gingival: | n/a |
22 | chr13:52639120-52639170 | NHDF-neo | bronchial: | n/a |
23 | chr13:52639120-52639170 | H1-hESC | embryonic stem cell: | embryo |
24 | chr13:52639120-52639170 | Hela-S3 | cervix: | n/a |
25 | chr13:52639120-52639170 | HRCEpiC | kidney: | n/a |
26 | chr13:52639120-52639170 | HCF | heart: | n/a |
27 | chr13:52639120-52639170 | GM12891 | blood: | n/a |
28 | chr13:52639120-52639170 | ovcar-3 | ovarian: | n/a |
29 | chr13:52639120-52639170 | SK-N-SH_RA | brain: | n/a |
30 | chr13:52639120-52639170 | ECC-1 | luminal epithelium: | n/a |
31 | chr13:52639120-52639170 | Caco-2 | colon: | n/a |
32 | chr13:52639120-52639170 | AG04449 | skin: | fetal |
33 | chr13:52639120-52639170 | AG04450 | lung: | fetal |
34 | chr13:52639120-52639170 | Jurkat | blood: | n/a |
35 | chr13:52639120-52639170 | PANC-1 | pancreas: | n/a |
36 | chr13:52639120-52639170 | HepG2 | liver: | n/a |
37 | chr13:52639120-52639170 | HCT-116 | colon: | n/a |
38 | chr13:52639120-52639170 | HEEpiC | esophagus: | n/a |
39 | chr13:52639120-52639170 | AG09309 | skin: | n/a |
40 | chr13:52639120-52639170 | MCF10A-Er-Src | breast: | n/a |
41 | chr13:52639120-52639170 | MCF-7 | breast: | n/a |
42 | chr13:52639120-52639170 | HPAEpiC | pulmonary alveolar: | n/a |
43 | chr13:52639120-52639170 | NH-A | brain: | n/a |
44 | chr13:52639120-52639170 | T-47D | breast: | n/a |
45 | chr13:52639120-52639170 | PFSK-1 | brain: | n/a |
46 | chr13:52639120-52639170 | A549 | lung: | n/a |
47 | chr13:52639120-52639170 | NB4 | blood: | n/a |
48 | chr13:52639120-52639170 | ProgFib | skin: | n/a |
49 | chr13:52639120-52639170 | HRPEpiC | eye: | n/a |
50 | chr13:52639120-52639170 | HCM | heart: | n/a |
No data |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
NEK5 | TF binding region |
NEK5 | CpG island |
rs_ID | r2[population] |
---|---|
rs11616964 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs12584961 | 0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs12585654 | 0.85[AFR][1000 genomes];0.81[ASN][1000 genomes] |
rs1886542 | 0.91[ASN][1000 genomes] |
rs1886547 | 0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs1998696 | 0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs2004866 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs2274202 | 0.90[ASN][1000 genomes] |
rs2296348 | 0.91[ASN][1000 genomes] |
rs2296349 | 0.91[ASN][1000 genomes] |
rs2296350 | 0.91[ASN][1000 genomes] |
rs2408544 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2408549 | 0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2408550 | 0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2408551 | 0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2408609 | 0.90[ASN][1000 genomes] |
rs2408611 | 0.91[ASN][1000 genomes] |
rs28393037 | 0.90[ASN][1000 genomes] |
rs2897976 | 0.90[ASN][1000 genomes] |
rs2897977 | 0.91[ASN][1000 genomes] |
rs3368 | 0.91[ASN][1000 genomes] |
rs35895576 | 0.88[ASN][1000 genomes] |
rs3825528 | 0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes] |
rs4297592 | 0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs55772266 | 0.88[EUR][1000 genomes];0.94[ASN][1000 genomes] |
rs61958812 | 0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs6650383 | 0.91[ASN][1000 genomes] |
rs723102 | 0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs723103 | 0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs7327634 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs7337430 | 0.88[ASN][1000 genomes] |
rs755363 | 0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs7993492 | 0.82[ASN][1000 genomes] |
rs7995946 | 0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs9526821 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs9526832 | 0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs9526837 | 0.84[AFR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs9526842 | 0.89[ASN][1000 genomes] |
rs9535829 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs9535832 | 0.82[ASN][1000 genomes] |
rs9535833 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs9535836 | 0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs9535851 | 0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs9535858 | 0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs9535860 | 0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs9535862 | 0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs9535866 | 0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes] |
rs9535872 | 0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes] |
rs9535878 | 0.90[ASN][1000 genomes] |
rs9535879 | 0.91[ASN][1000 genomes] |
rs9535880 | 0.91[ASN][1000 genomes] |
rs9535882 | 0.85[ASN][1000 genomes] |
rs9535885 | 0.88[ASN][1000 genomes] |
rs9535887 | 0.89[ASN][1000 genomes] |
rs9563084 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs9563089 | 0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes] |
rs9563091 | 0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs9563093 | 0.89[ASN][1000 genomes] |
rs9568693 | 0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs9568695 | 0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs9568708 | 0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs9568713 | 0.91[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv530718 | chr13:52291802-52832752 | Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 38 gene(s) | inside rSNPs | diseases |
2 | nsv1044310 | chr13:52321564-52643924 | Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 33 gene(s) | inside rSNPs | diseases |
3 | nsv1050117 | chr13:52325116-52643924 | Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 33 gene(s) | inside rSNPs | diseases |
4 | nsv934070 | chr13:52362588-53174923 | Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 59 gene(s) | inside rSNPs | diseases |
5 | nsv900082 | chr13:52555288-52709938 | ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 14 gene(s) | inside rSNPs | diseases |
6 | nsv1040931 | chr13:52564792-53350914 | Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 54 gene(s) | inside rSNPs | diseases |
7 | nsv541773 | chr13:52564792-53350914 | Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 54 gene(s) | inside rSNPs | diseases |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr13:52636400-52641000 | Weak transcription | Fetal Heart | heart |