Variant report

Variant	rs235474
Chromosome Location	chr1:171520726-171520727
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10753121	0.80[EUR][1000 genomes]
rs10753126	0.81[EUR][1000 genomes]
rs10753129	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10913176	0.80[EUR][1000 genomes]
rs10913198	0.82[EUR][1000 genomes]
rs116358	0.80[EUR][1000 genomes]
rs13722	0.80[EUR][1000 genomes]
rs1687057	0.85[EUR][1000 genomes]
rs1687060	0.81[EUR][1000 genomes]
rs1687061	0.82[EUR][1000 genomes]
rs1687064	0.84[EUR][1000 genomes]
rs170969	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs182897	0.81[EUR][1000 genomes]
rs2015996	0.82[EUR][1000 genomes]
rs2038042	0.80[EUR][1000 genomes]
rs2272809	0.82[EUR][1000 genomes]
rs235465	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs235466	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs235467	0.84[EUR][1000 genomes]
rs235468	0.84[EUR][1000 genomes]
rs235469	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs235470	0.85[EUR][1000 genomes]
rs235473	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs235475	0.83[EUR][1000 genomes]
rs235476	0.82[EUR][1000 genomes]
rs235480	0.83[EUR][1000 genomes]
rs235481	0.84[EUR][1000 genomes]
rs235482	0.85[EUR][1000 genomes]
rs235484	0.84[EUR][1000 genomes]
rs235489	0.80[EUR][1000 genomes]
rs235491	0.81[EUR][1000 genomes]
rs235492	0.81[EUR][1000 genomes]
rs235493	0.81[EUR][1000 genomes]
rs235494	0.81[EUR][1000 genomes]
rs235497	0.81[EUR][1000 genomes]
rs235500	0.81[EUR][1000 genomes]
rs235501	0.81[EUR][1000 genomes]
rs235503	0.81[EUR][1000 genomes]
rs235504	0.81[EUR][1000 genomes]
rs235505	0.81[EUR][1000 genomes]
rs235506	0.81[EUR][1000 genomes]
rs235508	0.81[EUR][1000 genomes]
rs235509	0.81[EUR][1000 genomes]
rs235510	0.81[EUR][1000 genomes]
rs235883	0.81[EUR][1000 genomes]
rs235884	0.81[EUR][1000 genomes]
rs235885	0.82[EUR][1000 genomes]
rs235887	0.81[EUR][1000 genomes]
rs235905	0.80[EUR][1000 genomes]
rs235906	0.81[EUR][1000 genomes]
rs235907	0.81[EUR][1000 genomes]
rs235908	0.81[EUR][1000 genomes]
rs2421841	0.80[EUR][1000 genomes]
rs4276951	0.80[EUR][1000 genomes]
rs4384265	0.80[EUR][1000 genomes]
rs4916230	0.80[EUR][1000 genomes]
rs4916392	0.80[EUR][1000 genomes]
rs4916393	0.80[EUR][1000 genomes]
rs4916394	0.80[EUR][1000 genomes]
rs61814663	0.82[EUR][1000 genomes]
rs61814673	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6697306	0.80[EUR][1000 genomes]
rs7514441	0.80[EUR][1000 genomes]
rs7523355	0.80[EUR][1000 genomes]
rs7536075	0.80[EUR][1000 genomes]
rs7538827	0.80[EUR][1000 genomes]
rs7548158	0.81[EUR][1000 genomes]
rs760643	0.82[EUR][1000 genomes]
rs760644	0.82[EUR][1000 genomes]
rs954035	0.81[EUR][1000 genomes]
rs958021	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv465639	chr1:171459507-171545051	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv548190	chr1:171459507-171545051	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171475800-171524400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:171481000-171528000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr1:171481200-171522400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr1:171481400-171522800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr1:171482000-171522000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:171482000-171523000	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:171482000-171524400	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr1:171482200-171541800	Strong transcription	Primary B cells from peripheral blood	blood
9	chr1:171495200-171524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr1:171501200-171525600	Weak transcription	Fetal Heart	heart
11	chr1:171505200-171525600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:171508400-171521200	Strong transcription	Primary hematopoietic stem cells	blood
13	chr1:171511200-171525000	Weak transcription	Stomach Mucosa	stomach
14	chr1:171511600-171524800	Weak transcription	Spleen	Spleen
15	chr1:171511800-171524200	Weak transcription	Brain Substantia Nigra	brain
16	chr1:171511800-171525000	Weak transcription	Colonic Mucosa	Colon
17	chr1:171513000-171525200	Weak transcription	HSMMtube	muscle
18	chr1:171513400-171525000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr1:171513400-171525000	Weak transcription	Right Ventricle	heart
20	chr1:171513600-171525800	Weak transcription	NHLF	lung
21	chr1:171515600-171524800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr1:171516200-171526600	Weak transcription	Small Intestine	intestine
23	chr1:171517400-171524400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:171517400-171525000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr1:171517400-171525000	Weak transcription	Esophagus	oesophagus
26	chr1:171517600-171524800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr1:171517600-171524800	Weak transcription	Lung	lung
28	chr1:171517600-171524800	Weak transcription	Pancreas	Pancrea
29	chr1:171517800-171525200	Weak transcription	HUVEC	blood vessel
30	chr1:171518200-171524800	Weak transcription	Aorta	Aorta
31	chr1:171518200-171525000	Weak transcription	Gastric	stomach
32	chr1:171518600-171524400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr1:171518600-171525000	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr1:171518800-171522600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr1:171518800-171525000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr1:171519000-171524800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr1:171519000-171524800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr1:171519200-171524400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr1:171519200-171525000	Weak transcription	Fetal Brain Female	brain
40	chr1:171519400-171522600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr1:171519400-171525000	Weak transcription	Brain Cingulate Gyrus	brain
42	chr1:171519400-171525800	Weak transcription	NH-A	brain
43	chr1:171519400-171526000	Weak transcription	A549	lung
44	chr1:171519600-171521800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr1:171519600-171521800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr1:171519600-171522800	Weak transcription	Dnd41	blood
47	chr1:171519600-171524800	Weak transcription	Colon Smooth Muscle	Colon
48	chr1:171519600-171525600	Weak transcription	HSMM	muscle
49	chr1:171519600-171525600	Weak transcription	NHDF-Ad	bronchial
50	chr1:171519600-171525800	Weak transcription	Hela-S3	cervix

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