Variant report

Variant	rs6725672
Chromosome Location	chr2:101020624-101020625
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:101016960..101019506-chr2:101020404..101023355,2	K562	blood:
2	chr2:101011844..101014323-chr2:101018753..101021911,3	K562	blood:
3	chr2:101005691..101009453-chr2:101017314..101020656,3	MCF-7	breast:
4	chr2:101019685..101022050-chr2:101032463..101034732,2	K562	blood:
5	chr2:100939189..100940921-chr2:101020436..101022884,2	K562	blood:

Variant related genes	Relation type
ENSG00000170500	Chromatin interaction
ENSG00000115526	Chromatin interaction

Extended variants
information (count: 133 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10167159	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs10172841	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[ASN][1000 genomes]
rs10176978	0.83[ASN][1000 genomes]
rs10180570	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10180685	1.00[ASN][1000 genomes]
rs10183063	0.95[ASN][1000 genomes]
rs10184899	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10193535	1.00[ASW][hapmap];1.00[GIH][hapmap];0.84[LWK][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs10206374	1.00[ASW][hapmap];0.96[GIH][hapmap];0.88[LWK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1057056	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1057063	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1057064	1.00[CHB][hapmap];0.92[YRI][hapmap]
rs1124009	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];0.86[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13391930	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13396147	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13400841	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13404823	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13407408	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13407648	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13407891	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13410582	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13419808	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1347721	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs1370627	1.00[GIH][hapmap];1.00[TSI][hapmap]
rs1437972	1.00[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.93[ASN][1000 genomes]
rs1465829	0.85[CHD][hapmap]
rs17024034	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17024035	1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17024129	1.00[ASW][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17024133	0.83[ASW][hapmap];0.90[GIH][hapmap]
rs17024136	1.00[ASW][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17024144	1.00[ASW][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17024203	1.00[CEU][hapmap];0.85[CHD][hapmap]
rs17024207	0.85[CHD][hapmap]
rs17024209	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1898571	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1898573	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs2083148	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2309801	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3748934	0.85[CHD][hapmap]
rs3748936	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3791358	1.00[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.95[ASN][1000 genomes]
rs4149506	0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4149509	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4149514	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4149515	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4149516	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4149522	0.85[CHD][hapmap]
rs4850932	1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4851276	1.00[CEU][hapmap]
rs55640826	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55843950	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55932868	0.93[ASN][1000 genomes]
rs56118658	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56656536	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs56741959	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57862179	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58164864	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58674788	0.93[ASN][1000 genomes]
rs58876304	0.85[AFR][1000 genomes]
rs59701896	0.93[ASN][1000 genomes]
rs59858985	0.93[ASN][1000 genomes]
rs60131548	0.85[AFR][1000 genomes]
rs60468180	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60566188	0.93[ASN][1000 genomes]
rs60609848	0.93[AMR][1000 genomes]
rs60898093	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs61321970	0.83[AMR][1000 genomes]
rs61710328	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6542933	0.93[ASN][1000 genomes]
rs6542945	0.93[ASN][1000 genomes]
rs6542946	1.00[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.98[ASN][1000 genomes]
rs6706707	0.93[ASN][1000 genomes]
rs6713862	0.85[AFR][1000 genomes]
rs6716009	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6716367	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs6724695	0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6728575	1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.93[ASN][1000 genomes]
rs6732285	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs6736938	0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6738566	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6739589	0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6749572	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6750040	1.00[CHB][hapmap]
rs6754869	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6755285	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6757774	0.85[AFR][1000 genomes]
rs6758161	0.83[AMR][1000 genomes]
rs6758622	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6761084	0.94[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs72960184	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72960186	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72960202	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73966105	0.93[ASN][1000 genomes]
rs73966106	0.93[ASN][1000 genomes]
rs73968413	0.93[ASN][1000 genomes]
rs7559084	0.93[ASN][1000 genomes]
rs7559939	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7559946	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7561065	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7562184	0.93[ASN][1000 genomes]
rs7562461	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7562479	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7562486	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7562615	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7562636	0.93[ASN][1000 genomes]
rs7562754	0.93[ASN][1000 genomes]
rs7564178	0.86[AMR][1000 genomes]
rs7565502	0.93[ASN][1000 genomes]
rs7567130	0.95[ASN][1000 genomes]
rs7571410	0.93[ASN][1000 genomes]
rs7571651	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7571659	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[ASN][1000 genomes]
rs7572119	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7574684	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7575422	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7576749	0.83[AMR][1000 genomes]
rs7580252	1.00[CEU][hapmap]
rs7582096	1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7582546	0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7585713	1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7585898	1.00[ASW][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7587333	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7596483	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7598205	1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.93[ASN][1000 genomes]
rs7598227	0.93[ASN][1000 genomes]
rs7605834	0.93[ASN][1000 genomes]
rs876439	1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.93[ASN][1000 genomes]
rs9308834	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv582531	chr2:100908508-101207639	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv874701	chr2:100976139-101023261	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100998200-101022600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr2:101002000-101023400	Weak transcription	Psoas Muscle	Psoas
3	chr2:101003200-101021000	Weak transcription	K562	blood
4	chr2:101005600-101032800	Weak transcription	HUVEC	blood vessel
5	chr2:101005800-101033000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr2:101006000-101021600	Weak transcription	Colon Smooth Muscle	Colon
7	chr2:101006600-101023600	Strong transcription	Brain Germinal Matrix	brain
8	chr2:101006600-101031600	Strong transcription	Fetal Stomach	stomach
9	chr2:101007000-101025000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:101007000-101027200	Strong transcription	Stomach Smooth Muscle	stomach
11	chr2:101007200-101032000	Weak transcription	NHDF-Ad	bronchial
12	chr2:101007400-101021600	Weak transcription	HSMMtube	muscle
13	chr2:101007600-101023400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr2:101007600-101024200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr2:101007600-101030600	Weak transcription	NH-A	brain
16	chr2:101007800-101021200	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr2:101007800-101023800	Strong transcription	Fetal Muscle Trunk	muscle
18	chr2:101007800-101024000	Weak transcription	Liver	Liver
19	chr2:101008000-101033000	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr2:101008400-101025200	Weak transcription	Fetal Brain Male	brain
21	chr2:101009000-101022000	Weak transcription	Esophagus	oesophagus
22	chr2:101009200-101023600	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr2:101009400-101026400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr2:101010000-101021800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:101010000-101022200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr2:101010000-101022200	Weak transcription	Fetal Kidney	kidney
27	chr2:101010200-101032800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr2:101010800-101022000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr2:101011000-101022200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr2:101012000-101024000	Weak transcription	Fetal Heart	heart
31	chr2:101012400-101021600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr2:101013000-101021200	Weak transcription	Primary B cells from peripheral blood	blood
33	chr2:101013200-101030400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr2:101013200-101033000	Weak transcription	Fetal Intestine Large	intestine
35	chr2:101013800-101021400	Weak transcription	Primary hematopoietic stem cells	blood
36	chr2:101014400-101033200	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr2:101014800-101032400	Weak transcription	Hela-S3	cervix
38	chr2:101015600-101033000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr2:101015800-101024400	Strong transcription	Fetal Brain Female	brain
40	chr2:101015800-101024400	Strong transcription	Fetal Muscle Leg	muscle
41	chr2:101016000-101023800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr2:101016200-101021200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr2:101016400-101023400	Strong transcription	Brain Cingulate Gyrus	brain
44	chr2:101016400-101028000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr2:101016400-101032600	Weak transcription	HSMM	muscle
46	chr2:101016800-101023600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
47	chr2:101016800-101024800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr2:101017000-101022200	Weak transcription	Right Atrium	heart
49	chr2:101017000-101032800	Weak transcription	Osteobl	bone
50	chr2:101017200-101024800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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