Variant report

Variant	rs13098884
Chromosome Location	chr3:160687386-160687387
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	chr3:160683839..160685876-chr3:160685916..160688095,2	K562	blood:
2	chr3:160685063..160687568-chr3:161087715..161090731,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1037888	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10513559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10513562	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs11708076	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708813	1.00[CEU][hapmap]
rs11716265	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs11922752	1.00[CEU][hapmap]
rs12639128	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs13064176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13073571	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13086250	1.00[CEU][hapmap]
rs13089559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13092102	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs13097130	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1374793	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1447618	1.00[CEU][hapmap]
rs1447619	1.00[CEU][hapmap]
rs1447620	1.00[CEU][hapmap]
rs1610158	0.89[CEU][hapmap]
rs17236725	1.00[CEU][hapmap]
rs17236746	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17826438	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2121718	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2306061	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs2593812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34168351	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4557202	0.86[CEU][hapmap]
rs4679662	1.00[CEU][hapmap]
rs4679666	1.00[CEU][hapmap]
rs4679671	0.94[EUR][1000 genomes]
rs4679922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4679924	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4679926	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs5004752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55672403	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888276	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61105146	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62280303	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62280331	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280333	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441339	1.00[CEU][hapmap]
rs6441348	0.84[EUR][1000 genomes]
rs6441354	0.85[CEU][hapmap]
rs6764019	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs6769642	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6772578	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6786871	0.92[EUR][1000 genomes]
rs6799160	0.93[CEU][hapmap];1.00[JPT][hapmap]
rs6804650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6806054	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6809177	1.00[CEU][hapmap]
rs723757	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7622047	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7628880	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7632423	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs778642	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs778643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs778645	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs778646	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs778648	0.92[EUR][1000 genomes]
rs778649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs778653	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs778654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs778657	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs778663	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs796609	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs898680	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs898681	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9290065	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9790132	0.96[CEU][hapmap];1.00[JPT][hapmap]
rs980975	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs980976	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9811594	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9820825	0.88[CEU][hapmap]
rs9831488	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9847866	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9860360	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9875200	1.00[CEU][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
3	nsv592135	chr3:160682500-160689164	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160667400-160696000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr3:160670400-160700400	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr3:160678400-160697600	Weak transcription	Primary T cells from cord blood	blood
4	chr3:160684600-160689200	Weak transcription	Dnd41	blood
5	chr3:160686600-160687400	Enhancers	H9 Cell Line	embryonic stem cell
6	chr3:160686600-160687400	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr3:160686600-160687600	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:160686600-160687600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:160686600-160687600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:160686800-160687600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:160686800-160687600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:160686800-160688000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:160687000-160687400	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr3:160687000-160687600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr3:160687000-160687600	Enhancers	Primary hematopoietic stem cells	blood
16	chr3:160687000-160687600	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr3:160687000-160691000	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:160687000-160696600	Weak transcription	Right Ventricle	heart
19	chr3:160687000-160698600	Weak transcription	Adipose Nuclei	Adipose
20	chr3:160687200-160688200	Enhancers	Monocytes-CD14+_RO01746	blood

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