Variant report

Variant	rs6972298
Chromosome Location	chr7:22231747-22231748
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	chr7:22230614..22233329-chr7:22240578..22242441,2	K562	blood:

Extended variants
information (count: 16 )
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];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10276439	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs10276809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17709607	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]
rs17709885	0.84[CEU][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17765217	0.93[CEU][hapmap]
rs17766562	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]
rs17766936	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3807525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3823663	1.00[CHB][hapmap]
rs4288272	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6959894	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6960745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7782218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs883073	0.93[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.81[EUR][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:66 , 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	chr7:22194400-22232400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:22207000-22232000	Weak transcription	Fetal Stomach	stomach
6	chr7:22214400-22247400	Weak transcription	HUVEC	blood vessel
7	chr7:22214600-22232000	Weak transcription	Small Intestine	intestine
8	chr7:22214600-22232400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr7:22214800-22232600	Weak transcription	NHEK	skin
10	chr7:22215400-22232000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr7:22218800-22232000	Weak transcription	Thymus	Thymus
12	chr7:22219600-22234600	Weak transcription	Primary T cells from cord blood	blood
13	chr7:22221800-22232400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr7:22221800-22233200	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr7:22222200-22235200	Weak transcription	GM12878-XiMat	blood
16	chr7:22223200-22232400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr7:22223200-22242600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr7:22223800-22234200	Weak transcription	HMEC	breast
19	chr7:22224000-22232600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr7:22224800-22232400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr7:22225200-22232000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr7:22225200-22233000	Strong transcription	Fetal Thymus	thymus
23	chr7:22225400-22253600	Weak transcription	Stomach Mucosa	stomach
24	chr7:22225800-22232000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr7:22225800-22246800	Strong transcription	Dnd41	blood
26	chr7:22226600-22232600	Strong transcription	Fetal Intestine Large	intestine
27	chr7:22227000-22236800	Strong transcription	Rectal Mucosa Donor 31	rectum
28	chr7:22227200-22233400	Strong transcription	Lung	lung
29	chr7:22227400-22245600	Strong transcription	HepG2	liver
30	chr7:22227600-22232400	Weak transcription	Spleen	Spleen
31	chr7:22228000-22233800	Active TSS	Brain Inferior Temporal Lobe	brain
32	chr7:22228800-22232600	Weak transcription	Ovary	ovary
33	chr7:22228800-22233800	Active TSS	Brain Angular Gyrus	brain
34	chr7:22228800-22233800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
35	chr7:22229200-22232200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr7:22229200-22232800	Weak transcription	Right Ventricle	heart
37	chr7:22229200-22233600	Active TSS	Brain Hippocampus Middle	brain
38	chr7:22229200-22233800	Active TSS	Brain Cingulate Gyrus	brain
39	chr7:22229200-22233800	Active TSS	Brain Substantia Nigra	brain
40	chr7:22229600-22233800	Strong transcription	Liver	Liver
41	chr7:22229800-22232200	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr7:22229800-22232600	Weak transcription	Fetal Muscle Leg	muscle
43	chr7:22230000-22232000	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr7:22230200-22233000	Strong transcription	Primary B cells from cord blood	blood
45	chr7:22230200-22233600	Strong transcription	Duodenum Mucosa	Duodenum
46	chr7:22230200-22233600	Strong transcription	Sigmoid Colon	Sigmoid Colon
47	chr7:22230400-22232000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr7:22230400-22232000	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr7:22230400-22232000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr7:22230400-22243000	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links