Variant report

Variant	rs10918873
Chromosome Location	chr1:168317903-168317904
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:168308797..168310371-chr1:168316245..168318028,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10489210	0.97[ASN][1000 genomes]
rs10800356	0.94[ASN][1000 genomes]
rs12034832	0.92[ASN][1000 genomes]
rs12123087	0.92[ASN][1000 genomes]
rs12128782	0.92[ASN][1000 genomes]
rs12136596	0.97[ASN][1000 genomes]
rs12137679	0.85[ASN][1000 genomes]
rs12403490	0.92[ASN][1000 genomes]
rs12409703	0.92[ASN][1000 genomes]
rs12566982	0.97[ASN][1000 genomes]
rs1569467	0.94[ASN][1000 genomes]
rs16860447	0.82[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs1977060	0.94[ASN][1000 genomes]
rs2268556	0.86[ASN][1000 genomes]
rs2268557	0.83[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs2268559	0.92[ASN][1000 genomes]
rs2268560	0.91[ASN][1000 genomes]
rs2900726	0.84[ASN][1000 genomes]
rs4656583	0.85[ASN][1000 genomes]
rs6427127	0.92[ASN][1000 genomes]
rs6670176	0.90[ASN][1000 genomes]
rs6697421	0.93[ASN][1000 genomes]
rs7532903	0.97[ASN][1000 genomes]
rs7555108	0.97[ASN][1000 genomes]
rs760685	0.83[CHB][hapmap];0.97[CHD][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831825	chr1:168179175-168353062	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1002007	chr1:168179463-168375973	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10918873	BLZF1	cis	parietal	SCAN
rs10918873	TMCO1	cis	parietal	SCAN

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168312200-168318000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr1:168312200-168318200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr1:168312200-168318200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:168312400-168318200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr1:168313000-168318200	Weak transcription	Spleen	Spleen
6	chr1:168314200-168318200	Weak transcription	Colon Smooth Muscle	Colon
7	chr1:168317000-168318000	Active TSS	Stomach Mucosa	stomach
8	chr1:168317000-168318200	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr1:168317200-168318000	Active TSS	Liver	Liver
10	chr1:168317200-168318000	Active TSS	Duodenum Mucosa	Duodenum
11	chr1:168317200-168318000	Active TSS	Ovary	ovary
12	chr1:168317200-168318000	Active TSS	A549	lung
13	chr1:168317200-168318000	Active TSS	GM12878-XiMat	blood
14	chr1:168317200-168318200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:168317200-168318200	Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr1:168317200-168318200	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
17	chr1:168317200-168318200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
18	chr1:168317200-168318200	Active TSS	Adipose Nuclei	Adipose
19	chr1:168317200-168318200	Active TSS	K562	blood
20	chr1:168317400-168318000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr1:168317400-168318000	Active TSS	Breast Myoepithelial Primary Cells	Breast
22	chr1:168317400-168318000	Active TSS	Primary B cells from peripheral blood	blood
23	chr1:168317400-168318000	Active TSS	Primary T cells fromperipheralblood	blood
24	chr1:168317400-168318000	Active TSS	Primary T helper cells fromperipheralblood	blood
25	chr1:168317400-168318000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr1:168317400-168318000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr1:168317400-168318000	Active TSS	Muscle Satellite Cultured Cells	--
28	chr1:168317400-168318000	Active TSS	Fetal Kidney	kidney
29	chr1:168317400-168318000	Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr1:168317400-168318000	Active TSS	Right Atrium	heart
31	chr1:168317400-168318000	Active TSS	Skeletal Muscle Male	skeletal muscle
32	chr1:168317400-168318000	Active TSS	Stomach Smooth Muscle	stomach
33	chr1:168317400-168318000	Active TSS	HepG2	liver
34	chr1:168317400-168318000	Active TSS	HUVEC	blood vessel
35	chr1:168317400-168318000	Active TSS	NHEK	skin
36	chr1:168317400-168318000	Active TSS	Osteobl	bone
37	chr1:168317400-168318200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr1:168317400-168318200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
39	chr1:168317400-168318200	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
40	chr1:168317400-168318200	Active TSS	Primary T killer memory cells from peripheral blood	blood
41	chr1:168317400-168318200	Active TSS	Duodenum Smooth Muscle	Duodenum
42	chr1:168317400-168318200	Active TSS	Rectal Mucosa Donor 29	rectum
43	chr1:168317400-168318200	Active TSS	Thymus	Thymus
44	chr1:168317600-168318000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr1:168317600-168318000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr1:168317600-168318000	Active TSS	Primary neutrophils fromperipheralblood	blood
47	chr1:168317600-168318000	Active TSS	Primary B cells from cord blood	blood
48	chr1:168317600-168318000	Active TSS	Primary T cells from cord blood	blood
49	chr1:168317600-168318000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
50	chr1:168317600-168318000	Active TSS	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links