Variant report

Variant	rs16961612
Chromosome Location	chr18:28854784-28854785
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DSG1-7	chr18:28853309-28855721	NONHSAT058813

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs16959853	1.00[AMR][1000 genomes]
rs16961547	1.00[AMR][1000 genomes]
rs16961551	1.00[AMR][1000 genomes]
rs16961553	1.00[AMR][1000 genomes]
rs16961554	1.00[AMR][1000 genomes]
rs16961556	1.00[AMR][1000 genomes]
rs16961558	1.00[AMR][1000 genomes]
rs16961562	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961607	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57902116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6506906	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7238045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7238707	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8086759	1.00[AMR][1000 genomes]
rs9304092	0.88[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28848200-28854800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr18:28849400-28854800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr18:28849400-28854800	Weak transcription	Hela-S3	cervix
4	chr18:28849400-28854800	Weak transcription	NH-A	brain
5	chr18:28849400-28855000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr18:28849800-28855000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr18:28850000-28855000	Weak transcription	Fetal Heart	heart
8	chr18:28850000-28855000	Weak transcription	Small Intestine	intestine
9	chr18:28850200-28854800	Weak transcription	Duodenum Mucosa	Duodenum
10	chr18:28850200-28855000	Weak transcription	Stomach Mucosa	stomach
11	chr18:28853200-28855200	Enhancers	Fetal Intestine Large	intestine
12	chr18:28853800-28855200	Enhancers	A549	lung
13	chr18:28853800-28855400	Enhancers	Liver	Liver
14	chr18:28853800-28855800	Enhancers	Fetal Intestine Small	intestine
15	chr18:28853800-28859400	Enhancers	HepG2	liver
16	chr18:28854200-28855000	Enhancers	NHEK	skin
17	chr18:28854200-28855400	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr18:28854200-28855600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr18:28854200-28856000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr18:28854200-28856000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr18:28854200-28856000	Enhancers	Psoas Muscle	Psoas
22	chr18:28854200-28856400	Enhancers	Adipose Nuclei	Adipose
23	chr18:28854200-28856400	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr18:28854200-28856400	Enhancers	HMEC	breast
25	chr18:28854200-28856600	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr18:28854200-28856600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr18:28854400-28857200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr18:28854600-28854800	Enhancers	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links