Variant report

Variant	rs3188897
Chromosome Location	chr4:110745425-110745426
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:110744505..110746809-chr4:110749659..110751838,2	K562	blood:
2	chr4:110736461..110738940-chr4:110744765..110747082,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109534	Chromatin interaction
ENSG00000272795	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10020617	0.82[JPT][hapmap]
rs10365	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11721403	0.92[ASW][hapmap]
rs11724973	0.83[CEU][hapmap];0.86[CHB][hapmap]
rs11930428	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11937249	0.82[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12510851	0.82[JPT][hapmap]
rs13107617	0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13128301	0.82[JPT][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1990250	0.92[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2347129	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35386791	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35646628	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4541508	0.83[ASW][hapmap]
rs4698797	0.95[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6533470	0.82[MEX][hapmap]
rs6814789	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6827802	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7438763	0.92[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs764205	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7654660	0.95[CHB][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7664699	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7679303	0.82[MEX][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	nsv530156	chr4:110721397-110911297	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110737600-110745800	Weak transcription	Spleen	Spleen
2	chr4:110737600-110770600	Weak transcription	Aorta	Aorta
3	chr4:110737800-110746400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:110737800-110746600	Weak transcription	Esophagus	oesophagus
5	chr4:110737800-110748000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr4:110737800-110753200	Weak transcription	Lung	lung
7	chr4:110738000-110747200	Weak transcription	Gastric	stomach
8	chr4:110738000-110748400	Weak transcription	Small Intestine	intestine
9	chr4:110738000-110760800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:110738200-110746400	Weak transcription	Colonic Mucosa	Colon
11	chr4:110738200-110747800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr4:110738400-110748000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr4:110738400-110748000	Weak transcription	Ovary	ovary
14	chr4:110738400-110748400	Weak transcription	Right Ventricle	heart
15	chr4:110738400-110748600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr4:110738400-110757200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr4:110738600-110746800	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr4:110738600-110747000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr4:110738600-110747600	Weak transcription	Fetal Heart	heart
20	chr4:110738600-110748400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
21	chr4:110738800-110746800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:110738800-110746800	Strong transcription	Adipose Nuclei	Adipose
23	chr4:110738800-110747000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr4:110738800-110747000	Strong transcription	Fetal Thymus	thymus
25	chr4:110738800-110747000	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr4:110738800-110747000	Strong transcription	Rectal Mucosa Donor 31	rectum
27	chr4:110738800-110747200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr4:110738800-110747200	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr4:110738800-110747200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr4:110738800-110747600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr4:110738800-110748600	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr4:110739000-110745800	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr4:110739000-110746200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr4:110739000-110746800	Strong transcription	HUVEC	blood vessel
35	chr4:110739000-110747000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr4:110739000-110747000	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr4:110739000-110747000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr4:110739000-110747000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:110739000-110747000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr4:110739000-110747000	Strong transcription	K562	blood
41	chr4:110739000-110747000	Strong transcription	Osteobl	bone
42	chr4:110739000-110748400	Weak transcription	Fetal Brain Male	brain
43	chr4:110739000-110749800	Weak transcription	NHLF	lung
44	chr4:110739200-110746800	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr4:110739200-110747000	Strong transcription	Liver	Liver
46	chr4:110739200-110747200	Strong transcription	NH-A	brain
47	chr4:110739200-110748400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr4:110739200-110748600	Strong transcription	HSMM	muscle
49	chr4:110739400-110747000	Strong transcription	Primary B cells from peripheral blood	blood
50	chr4:110739400-110747600	Strong transcription	Dnd41	blood

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