Variant report

Variant	rs6954187
Chromosome Location	chr7:21498302-21498303
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11508471	0.83[ASN][1000 genomes]
rs2237304	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2237305	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2282891	0.91[ASN][1000 genomes]
rs2282893	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2282894	0.81[ASN][1000 genomes]
rs2282895	0.81[ASN][1000 genomes]
rs39304	0.83[EUR][1000 genomes]
rs55672935	0.82[ASN][1000 genomes]
rs55844648	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs56099083	0.83[ASN][1000 genomes]
rs59497715	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs60274229	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62439717	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6461570	0.81[ASN][1000 genomes]
rs6943809	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6974789	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6976865	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7778625	0.95[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7790804	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027302	chr7:21391598-21727016	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv538800	chr7:21391598-21727016	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1028434	chr7:21468437-21636671	ZNF genes & repeats Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1023655	chr7:21486485-21727016	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv538801	chr7:21486485-21727016	ZNF genes & repeats Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv830921	chr7:21489100-21688016	Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21470400-21516600	Weak transcription	Liver	Liver
2	chr7:21470400-21536400	Weak transcription	Esophagus	oesophagus
3	chr7:21472800-21506000	Weak transcription	Right Ventricle	heart
4	chr7:21474800-21520600	Weak transcription	Brain Angular Gyrus	brain
5	chr7:21487400-21557000	Weak transcription	Aorta	Aorta
6	chr7:21487600-21498400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr7:21490200-21499000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr7:21491000-21526800	Weak transcription	Brain Hippocampus Middle	brain
9	chr7:21491000-21536400	Weak transcription	Left Ventricle	heart
10	chr7:21491400-21503000	Weak transcription	Gastric	stomach
11	chr7:21491800-21502200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr7:21492200-21545200	Weak transcription	Small Intestine	intestine
13	chr7:21493000-21539000	Weak transcription	Spleen	Spleen
14	chr7:21493800-21529600	Weak transcription	Brain Anterior Caudate	brain
15	chr7:21494000-21500200	Strong transcription	Primary T cells from cord blood	blood
16	chr7:21494000-21501600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr7:21494000-21504600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr7:21494400-21505600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr7:21494400-21517400	Weak transcription	Fetal Kidney	kidney
20	chr7:21494600-21499400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr7:21494800-21500600	Strong transcription	Primary B cells from cord blood	blood
22	chr7:21495000-21498400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr7:21495200-21521600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr7:21495600-21501400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr7:21495800-21499000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr7:21495800-21516800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr7:21496000-21498400	Weak transcription	Fetal Lung	lung
28	chr7:21496000-21498800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr7:21496000-21499200	Weak transcription	Fetal Brain Female	brain
30	chr7:21496000-21500600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr7:21496000-21502800	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr7:21496000-21516600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr7:21496000-21519200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr7:21496200-21498600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr7:21496200-21499000	Weak transcription	Primary hematopoietic stem cells	blood
36	chr7:21496200-21499200	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr7:21496200-21499800	Weak transcription	Brain Germinal Matrix	brain
38	chr7:21496200-21500800	Weak transcription	Fetal Intestine Large	intestine
39	chr7:21496200-21505400	Weak transcription	Ovary	ovary
40	chr7:21496200-21517800	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr7:21496400-21498600	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr7:21496400-21499200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr7:21496600-21498400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr7:21496600-21498400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr7:21496600-21498400	Weak transcription	Thymus	Thymus
46	chr7:21496600-21498400	Weak transcription	HSMMtube	muscle
47	chr7:21496600-21498800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr7:21496600-21499000	Weak transcription	GM12878-XiMat	blood
49	chr7:21496600-21499200	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr7:21496600-21499600	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links