Variant report

Variant	rs41453048
Chromosome Location	chr1:185529717-185529718
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:185139306..185139973-chr1:185528908..185529803,2	MCF-7	breast:
2	chr1:185284911..185288305-chr1:185527011..185530807,5	MCF-7	breast:
3	chr1:185528036..185530199-chr1:185540176..185542231,2	MCF-7	breast:
4	chr1:185284990..185287378-chr1:185527957..185530692,5	MCF-7	breast:
5	chr1:185523762..185526492-chr1:185528261..185529807,2	MCF-7	breast:
6	chr1:185518755..185520867-chr1:185527549..185529971,2	K562	blood:
7	chr1:185528755..185530819-chr1:185535016..185536527,2	K562	blood:

Variant related genes	Relation type
ENSG00000116679	Chromatin interaction
ENSG00000273004	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10911754	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10911755	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHD][hapmap];1.00[LWK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10911756	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11576129	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11576884	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11581960	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11583193	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[JPT][hapmap];0.90[MKK][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11586588	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11586605	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12029108	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12046138	0.88[ASN][1000 genomes]
rs12048982	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12402146	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12402607	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1321998	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1321999	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHD][hapmap];1.00[LWK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2295792	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28776539	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35495151	0.83[EUR][1000 genomes]
rs56164019	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56822355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57836721	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58678353	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs58848006	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72726098	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72727706	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72727712	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72727717	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72727728	0.88[ASN][1000 genomes]
rs74132957	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7518777	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]

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	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185521000-185533800	Weak transcription	Placenta	Placenta
2	chr1:185525400-185536000	Weak transcription	Stomach Mucosa	stomach
3	chr1:185526400-185533800	Weak transcription	Osteobl	bone
4	chr1:185526600-185530600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr1:185527600-185530400	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr1:185527800-185530000	Weak transcription	Left Ventricle	heart
7	chr1:185527800-185532400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:185528000-185536000	Weak transcription	Fetal Kidney	kidney
9	chr1:185528200-185531800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
10	chr1:185528400-185530600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr1:185528400-185530600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr1:185528400-185530600	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr1:185528400-185530800	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr1:185528400-185531000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr1:185528400-185531200	Enhancers	Primary hematopoietic stem cells	blood
16	chr1:185528400-185531800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr1:185528400-185532400	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr1:185528600-185529800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr1:185528600-185530800	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr1:185528600-185530800	Enhancers	GM12878-XiMat	blood
21	chr1:185528600-185531000	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr1:185528600-185531200	Enhancers	Primary T cells fromperipheralblood	blood
23	chr1:185528600-185531400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr1:185528600-185533000	Enhancers	Primary T cells from cord blood	blood
25	chr1:185528600-185539800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr1:185528800-185530000	Enhancers	Brain Substantia Nigra	brain
27	chr1:185528800-185530400	Enhancers	Primary B cells from cord blood	blood
28	chr1:185528800-185530800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr1:185528800-185530800	Enhancers	Spleen	Spleen
30	chr1:185528800-185531000	Enhancers	Primary B cells from peripheral blood	blood
31	chr1:185528800-185531200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr1:185528800-185531600	Enhancers	Fetal Thymus	thymus
33	chr1:185528800-185531800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr1:185528800-185531800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr1:185528800-185531800	Enhancers	Thymus	Thymus
36	chr1:185528800-185532800	Enhancers	Primary T helper cells PMA-I stimulated	--
37	chr1:185529000-185530000	Enhancers	Dnd41	blood
38	chr1:185529000-185530800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr1:185529200-185529800	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr1:185529200-185530000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr1:185529200-185530000	Enhancers	Brain Cingulate Gyrus	brain
42	chr1:185529200-185535400	Weak transcription	Small Intestine	intestine
43	chr1:185529400-185530400	Enhancers	Duodenum Mucosa	Duodenum
44	chr1:185529400-185530600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:185529400-185531400	Enhancers	Primary neutrophils fromperipheralblood	blood
46	chr1:185529400-185533200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr1:185529400-185533800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr1:185529400-185534000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr1:185529400-185534000	Weak transcription	Fetal Heart	heart
50	chr1:185529400-185543000	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links