Variant report

Variant	rs7626431
Chromosome Location	chr3:23902213-23902214
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23896966..23899460-chr3:23900307..23902326,2	MCF-7	breast:
2	chr3:23874649..23878257-chr3:23899567..23903129,3	MCF-7	breast:
3	chr3:23900524..23903496-chr3:23949527..23951902,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1026407	0.86[JPT][hapmap]
rs11707828	0.95[JPT][hapmap]
rs12631785	0.88[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs13095392	0.81[CEU][hapmap]
rs1471060	0.95[JPT][hapmap]
rs1473380	0.81[JPT][hapmap]
rs1473381	0.82[JPT][hapmap]
rs4024642	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4025822	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4241514	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4241517	0.91[CEU][hapmap]
rs4321479	0.87[CEU][hapmap]
rs4546101	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4589882	0.87[CEU][hapmap]
rs4858094	0.96[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4858095	0.87[CEU][hapmap]
rs4858098	0.88[CEU][hapmap]
rs4858548	0.81[ASN][1000 genomes]
rs4858549	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4858550	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4858551	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4858553	0.96[CEU][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4858567	0.87[CEU][hapmap]
rs5023610	0.88[CEU][hapmap]
rs6550804	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs6550807	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6550823	0.87[CEU][hapmap]
rs6762238	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6764154	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6779476	0.83[CEU][hapmap]
rs6794922	0.87[CEU][hapmap]
rs6807856	0.84[CEU][hapmap]
rs7371944	0.83[CEU][hapmap]
rs7615009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615255	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627709	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7648931	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7651185	0.95[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9842907	0.83[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs9845287	0.96[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9863320	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9869299	0.86[JPT][hapmap];0.84[AMR][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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23876800-23906800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:23879000-23907400	Weak transcription	K562	blood
3	chr3:23882200-23905600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:23882800-23906000	Weak transcription	HepG2	liver
5	chr3:23890600-23902800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:23893600-23906400	Weak transcription	Aorta	Aorta
7	chr3:23893600-23906600	Weak transcription	Colonic Mucosa	Colon
8	chr3:23894400-23903000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:23894600-23902400	Weak transcription	Brain Germinal Matrix	brain
10	chr3:23894600-23903000	Weak transcription	Fetal Intestine Large	intestine
11	chr3:23894800-23902800	Weak transcription	Fetal Intestine Small	intestine
12	chr3:23895000-23903400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:23897400-23902600	Enhancers	Primary B cells from peripheral blood	blood
14	chr3:23897400-23902600	Enhancers	Thymus	Thymus
15	chr3:23898000-23902600	Enhancers	Fetal Thymus	thymus
16	chr3:23898000-23902600	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr3:23898000-23904800	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr3:23898200-23907000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:23898400-23907200	Weak transcription	Stomach Mucosa	stomach
20	chr3:23898600-23903000	Weak transcription	Fetal Stomach	stomach
21	chr3:23899000-23907000	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr3:23899200-23902800	Enhancers	Primary hematopoietic stem cells	blood
23	chr3:23899400-23905600	Weak transcription	Liver	Liver
24	chr3:23899400-23906200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr3:23899400-23906200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr3:23899400-23907000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr3:23899400-23907200	Weak transcription	NH-A	brain
28	chr3:23900400-23903400	Enhancers	Brain Substantia Nigra	brain
29	chr3:23900400-23903400	Enhancers	Fetal Heart	heart
30	chr3:23900800-23902400	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr3:23900800-23903000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr3:23900800-23906200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr3:23900800-23906200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:23900800-23907000	Weak transcription	Fetal Kidney	kidney
35	chr3:23901000-23902800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:23901000-23902800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr3:23901000-23903000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr3:23901000-23903000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr3:23901000-23903000	Weak transcription	Fetal Lung	lung
40	chr3:23901000-23903200	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr3:23901000-23903600	Weak transcription	A549	lung
42	chr3:23901000-23903600	Weak transcription	HUVEC	blood vessel
43	chr3:23901000-23905400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:23901000-23905600	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr3:23901000-23905600	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr3:23901000-23906000	Weak transcription	NHLF	lung
47	chr3:23901000-23906400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr3:23901000-23906800	Weak transcription	NHDF-Ad	bronchial
49	chr3:23901000-23907400	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr3:23901200-23902400	Weak transcription	Stomach Smooth Muscle	stomach

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