Variant report

Variant	rs17766562
Chromosome Location	chr7:22224775-22224776
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	chr7:22223272..22225334-chr7:22226478..22228657,2	MCF-7	breast:
2	chr7:22223577..22226016-chr7:22227692..22230056,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10266511	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10276439	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10276809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17146306	1.00[CHB][hapmap]
rs17709607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17709885	0.84[CEU][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17765217	0.93[CEU][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17766936	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3807525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3823663	1.00[CHB][hapmap]
rs4288272	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6959894	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6960745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6972298	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7782218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs883073	0.93[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes];0.92[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	nsv606405	chr7:22202485-22235825	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:22184600-22240600	Weak transcription	Colonic Mucosa	Colon
2	chr7:22190000-22232800	Weak transcription	Aorta	Aorta
3	chr7:22193800-22232000	Weak transcription	Adipose Nuclei	Adipose
4	chr7:22194400-22227200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr7:22194400-22232400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:22207000-22232000	Weak transcription	Fetal Stomach	stomach
7	chr7:22214400-22247400	Weak transcription	HUVEC	blood vessel
8	chr7:22214600-22232000	Weak transcription	Small Intestine	intestine
9	chr7:22214600-22232400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr7:22214800-22232600	Weak transcription	NHEK	skin
11	chr7:22215000-22226600	Weak transcription	Esophagus	oesophagus
12	chr7:22215400-22232000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr7:22217400-22229000	Weak transcription	Pancreas	Pancrea
14	chr7:22218400-22226600	Weak transcription	Fetal Intestine Large	intestine
15	chr7:22218400-22227000	Weak transcription	Spleen	Spleen
16	chr7:22218600-22227000	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr7:22218600-22227200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr7:22218600-22227200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr7:22218600-22227200	Weak transcription	Lung	lung
20	chr7:22218600-22229000	Weak transcription	Fetal Intestine Small	intestine
21	chr7:22218800-22232000	Weak transcription	Thymus	Thymus
22	chr7:22219600-22234600	Weak transcription	Primary T cells from cord blood	blood
23	chr7:22220200-22229600	Weak transcription	Left Ventricle	heart
24	chr7:22220400-22226600	Weak transcription	Liver	Liver
25	chr7:22220600-22226600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr7:22220600-22227200	Weak transcription	Primary B cells from cord blood	blood
27	chr7:22221800-22230200	Weak transcription	Fetal Brain Male	brain
28	chr7:22221800-22232400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr7:22221800-22233200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr7:22222000-22224800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr7:22222000-22227400	Weak transcription	HepG2	liver
32	chr7:22222000-22229200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr7:22222200-22229000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr7:22222200-22235200	Weak transcription	GM12878-XiMat	blood
35	chr7:22222800-22225400	Genic enhancers	Dnd41	blood
36	chr7:22222800-22230200	Weak transcription	Fetal Brain Female	brain
37	chr7:22223000-22224800	Enhancers	Brain Anterior Caudate	brain
38	chr7:22223200-22232400	Weak transcription	Rectal Smooth Muscle	rectum
39	chr7:22223200-22242600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr7:22223600-22225200	Weak transcription	Fetal Thymus	thymus
41	chr7:22223800-22225200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr7:22223800-22225400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr7:22223800-22234200	Weak transcription	HMEC	breast
44	chr7:22224000-22225200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr7:22224000-22225200	Flanking Active TSS	Brain Cingulate Gyrus	brain
46	chr7:22224000-22232600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr7:22224200-22224800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr7:22224200-22224800	Enhancers	H9 Cell Line	embryonic stem cell
49	chr7:22224200-22224800	Flanking Active TSS	Brain Hippocampus Middle	brain
50	chr7:22224200-22225000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links