Variant report

Variant	rs9833654
Chromosome Location	chr3:156349000-156349001
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156346639..156349927-chr3:156351146..156353666,3	K562	blood:
2	chr3:156347156..156349827-chr3:156350754..156354562,3	K562	blood:
3	chr3:156347077..156349787-chr3:156893431..156895606,2	K562	blood:
4	chr3:156335907..156337985-chr3:156346780..156349354,2	MCF-7	breast:
5	chr3:156344548..156346713-chr3:156347054..156349702,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs11711144	0.94[ASN][1000 genomes]
rs12489699	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12493167	0.81[AMR][1000 genomes]
rs12631936	0.86[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs12696038	0.86[CEU][hapmap]
rs13090418	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13314546	0.86[CEU][hapmap]
rs16826570	0.86[CEU][hapmap]
rs16826572	0.86[CEU][hapmap]
rs17367831	0.86[CEU][hapmap]
rs2089735	0.91[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.81[TSI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2102506	0.86[CHB][hapmap];0.92[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs2320895	0.84[CEU][hapmap]
rs56097380	0.87[AFR][1000 genomes]
rs6441080	0.86[CEU][hapmap]
rs6650896	0.86[CEU][hapmap]
rs6762513	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6762762	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6783136	1.00[YRI][hapmap]
rs6807235	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6808027	0.86[CEU][hapmap]
rs7618375	0.86[CEU][hapmap]
rs7619192	0.85[AFR][1000 genomes]
rs7632294	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7640295	0.85[CEU][hapmap]
rs7640363	0.86[CEU][hapmap]
rs7652356	0.86[CEU][hapmap]
rs874641	0.86[CEU][hapmap]
rs874642	0.83[CEU][hapmap]
rs874662	0.86[CEU][hapmap]
rs9811767	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.97[MKK][hapmap];0.84[TSI][hapmap];0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9819659	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9824348	1.00[YRI][hapmap]
rs9831507	0.86[CEU][hapmap]
rs9832367	0.85[CEU][hapmap]
rs9843340	0.86[CEU][hapmap]
rs9865431	0.93[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9870053	0.85[CEU][hapmap]
rs9870256	0.86[CEU][hapmap]
rs9870575	0.85[CEU][hapmap]
rs9870882	0.84[YRI][hapmap]
rs9882596	0.86[CEU][hapmap]

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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156343600-156349600	Enhancers	NHEK	skin
2	chr3:156344400-156350200	Weak transcription	K562	blood
3	chr3:156345400-156349600	Enhancers	HMEC	breast
4	chr3:156345600-156349600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:156345600-156349600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr3:156345600-156350600	Enhancers	HSMMtube	muscle
7	chr3:156345800-156349600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:156346000-156349400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr3:156346000-156349400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr3:156346000-156349600	Enhancers	Osteobl	bone
11	chr3:156346000-156349800	Enhancers	HSMM	muscle
12	chr3:156346600-156350800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:156346800-156350000	Weak transcription	Fetal Heart	heart
14	chr3:156347000-156352000	Enhancers	Fetal Muscle Leg	muscle
15	chr3:156347200-156349000	Enhancers	Psoas Muscle	Psoas
16	chr3:156347200-156349200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:156347200-156349400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr3:156347200-156349600	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr3:156347600-156349400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:156347600-156353800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:156347800-156349200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:156347800-156349400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:156347800-156349400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr3:156347800-156349400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:156347800-156349400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr3:156347800-156350200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr3:156348000-156349000	Weak transcription	Esophagus	oesophagus
28	chr3:156348000-156349400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:156348000-156350800	Weak transcription	Left Ventricle	heart
30	chr3:156348200-156349200	Enhancers	NH-A	brain
31	chr3:156348400-156349200	Enhancers	Fetal Kidney	kidney
32	chr3:156348400-156349400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr3:156348600-156349000	Flanking Active TSS	Hela-S3	cervix
34	chr3:156348600-156349200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr3:156348600-156349400	Enhancers	Pancreas	Pancrea
36	chr3:156348800-156349000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
37	chr3:156348800-156349600	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr3:156348800-156351200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr3:156348800-156352600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr3:156348800-156360600	Weak transcription	Right Atrium	heart
41	chr3:156349000-156349400	Enhancers	Esophagus	oesophagus
42	chr3:156349000-156349400	Enhancers	Hela-S3	cervix
43	chr3:156349000-156349600	Enhancers	Muscle Satellite Cultured Cells	--
44	chr3:156349000-156350800	Weak transcription	Psoas Muscle	Psoas

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