Variant report

Variant	rs9886139
Chromosome Location	chr7:22204128-22204129
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:22202886..22205494-chr7:22212992..22215483,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10248958	1.00[YRI][hapmap]
rs10250341	1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs10250355	1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs10255486	1.00[CHB][hapmap]
rs10282106	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10282222	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10950895	1.00[CHB][hapmap]
rs11763898	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11766435	0.89[CEU][hapmap]
rs11766861	0.89[CEU][hapmap]
rs12530484	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12533150	1.00[CHB][hapmap]
rs12700363	0.89[CEU][hapmap]
rs12700364	0.89[CEU][hapmap]
rs1345251	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1419765	0.89[CEU][hapmap]
rs17773555	0.87[CEU][hapmap]
rs2079478	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28411164	0.88[AFR][1000 genomes]
rs28435496	0.88[AFR][1000 genomes]
rs28450495	0.88[AFR][1000 genomes]
rs28587984	0.88[AFR][1000 genomes]
rs28716840	0.88[AFR][1000 genomes]
rs4291165	1.00[CHB][hapmap]
rs4496855	1.00[CHB][hapmap]
rs4590334	1.00[CHB][hapmap]
rs4640962	1.00[CHB][hapmap]
rs4722102	0.88[AFR][1000 genomes]
rs4722104	0.88[AFR][1000 genomes]
rs4722105	0.88[AFR][1000 genomes]
rs4722108	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4722110	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs5014150	1.00[CHB][hapmap]
rs6461640	1.00[CHB][hapmap]
rs6461641	1.00[CHB][hapmap]
rs6944433	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6948973	1.00[CHB][hapmap]
rs6949461	1.00[CHB][hapmap]
rs6960216	0.88[AFR][1000 genomes]
rs6960229	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6965394	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6971344	1.00[CHB][hapmap]
rs6980127	1.00[CHB][hapmap]
rs73683318	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7796738	1.00[CHB][hapmap]
rs7803094	0.89[CEU][hapmap]
rs7809342	1.00[CHB][hapmap]
rs7810806	1.00[CEU][hapmap];0.89[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:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:22159800-22214000	Weak transcription	Small Intestine	intestine
2	chr7:22179600-22206600	Weak transcription	Fetal Stomach	stomach
3	chr7:22184600-22240600	Weak transcription	Colonic Mucosa	Colon
4	chr7:22187000-22204800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr7:22190000-22232800	Weak transcription	Aorta	Aorta
6	chr7:22192600-22208200	Strong transcription	Liver	Liver
7	chr7:22193600-22207800	Weak transcription	Placenta	Placenta
8	chr7:22193800-22232000	Weak transcription	Adipose Nuclei	Adipose
9	chr7:22194200-22223200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr7:22194400-22218200	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr7:22194400-22219400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr7:22194400-22227200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr7:22194400-22232400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:22194600-22221200	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr7:22196000-22204200	Strong transcription	Dnd41	blood
16	chr7:22196200-22213800	Weak transcription	GM12878-XiMat	blood
17	chr7:22196400-22213800	Weak transcription	Primary B cells from cord blood	blood
18	chr7:22196600-22213600	Weak transcription	HUVEC	blood vessel
19	chr7:22196600-22214000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr7:22196800-22216800	Weak transcription	Spleen	Spleen
21	chr7:22196800-22218000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr7:22197600-22206600	Weak transcription	Fetal Kidney	kidney
23	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr7:22197600-22213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr7:22197600-22213400	Weak transcription	Thymus	Thymus
26	chr7:22197800-22206000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr7:22197800-22206200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr7:22198000-22212800	Weak transcription	NHEK	skin
29	chr7:22198000-22223600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr7:22198200-22208000	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr7:22198200-22212400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr7:22198400-22213400	Weak transcription	Esophagus	oesophagus
33	chr7:22199000-22205400	Weak transcription	Fetal Thymus	thymus
34	chr7:22199400-22204400	Weak transcription	HepG2	liver
35	chr7:22199400-22205800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr7:22199800-22219600	Weak transcription	Left Ventricle	heart
37	chr7:22200600-22205400	Weak transcription	Lung	lung
38	chr7:22200800-22205600	Weak transcription	Fetal Intestine Large	intestine
39	chr7:22201000-22204600	Enhancers	Brain Substantia Nigra	brain
40	chr7:22201000-22209200	Weak transcription	Fetal Intestine Small	intestine
41	chr7:22201200-22205800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr7:22201400-22207800	Weak transcription	Brain Hippocampus Middle	brain
43	chr7:22201600-22209600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr7:22202600-22206000	Weak transcription	Brain Angular Gyrus	brain
45	chr7:22202600-22212600	Weak transcription	Brain Anterior Caudate	brain
46	chr7:22203400-22205800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr7:22204000-22206000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr7:22204000-22209200	Weak transcription	Pancreas	Pancrea
49	chr7:22204000-22214000	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links