Variant report

Variant	rs17709607
Chromosome Location	chr7:22206854-22206855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10266511	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10276439	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10276809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17709885	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs17765217	0.93[CEU][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17766562	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]
rs17766936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs3807525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3823663	1.00[CHB][hapmap]
rs4288272	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6959894	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6960745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6972298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7782218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs883073	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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
2	nsv971131	chr7:22204988-22208217	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:22159800-22214000	Weak transcription	Small Intestine	intestine
2	chr7:22184600-22240600	Weak transcription	Colonic Mucosa	Colon
3	chr7:22190000-22232800	Weak transcription	Aorta	Aorta
4	chr7:22192600-22208200	Strong transcription	Liver	Liver
5	chr7:22193600-22207800	Weak transcription	Placenta	Placenta
6	chr7:22193800-22232000	Weak transcription	Adipose Nuclei	Adipose
7	chr7:22194200-22223200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:22194400-22218200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr7:22194400-22219400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr7:22194400-22227200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr7:22194400-22232400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr7:22194600-22221200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr7:22196200-22213800	Weak transcription	GM12878-XiMat	blood
14	chr7:22196400-22213800	Weak transcription	Primary B cells from cord blood	blood
15	chr7:22196600-22213600	Weak transcription	HUVEC	blood vessel
16	chr7:22196600-22214000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr7:22196800-22216800	Weak transcription	Spleen	Spleen
18	chr7:22196800-22218000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr7:22197600-22213400	Weak transcription	Thymus	Thymus
22	chr7:22198000-22212800	Weak transcription	NHEK	skin
23	chr7:22198000-22223600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr7:22198200-22208000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr7:22198200-22212400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr7:22198400-22213400	Weak transcription	Esophagus	oesophagus
27	chr7:22199800-22219600	Weak transcription	Left Ventricle	heart
28	chr7:22201000-22209200	Weak transcription	Fetal Intestine Small	intestine
29	chr7:22201400-22207800	Weak transcription	Brain Hippocampus Middle	brain
30	chr7:22201600-22209600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr7:22202600-22212600	Weak transcription	Brain Anterior Caudate	brain
32	chr7:22204000-22209200	Weak transcription	Pancreas	Pancrea
33	chr7:22204000-22214000	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr7:22204400-22207600	Strong transcription	HepG2	liver
35	chr7:22204600-22207400	Weak transcription	Brain Substantia Nigra	brain
36	chr7:22204800-22209000	Strong transcription	Dnd41	blood
37	chr7:22205800-22213400	Weak transcription	Lung	lung
38	chr7:22206600-22207000	Enhancers	Fetal Stomach	stomach
39	chr7:22206600-22208000	Enhancers	K562	blood
40	chr7:22206600-22209800	Weak transcription	Brain Angular Gyrus	brain
41	chr7:22206800-22207000	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr7:22206800-22207800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr7:22206800-22209200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr7:22206800-22212800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr7:22206800-22213200	Weak transcription	Fetal Thymus	thymus
46	chr7:22206800-22215400	Weak transcription	Fetal Intestine Large	intestine
47	chr7:22206800-22215600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr7:22206800-22218200	Weak transcription	Duodenum Mucosa	Duodenum

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