Variant report

Variant	rs410449
Chromosome Location	chr6:109539853-109539854
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	chr6:109538062..109539919-chr6:109704184..109705919,2	MCF-7	breast:

Extended variants
information (count: 108 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs11153161	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964178	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12176068	0.90[EUR][1000 genomes]
rs1260593	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1260595	0.84[CEU][hapmap]
rs1260596	0.83[CEU][hapmap]
rs1269172	0.91[EUR][1000 genomes]
rs1271693	0.86[ASN][1000 genomes]
rs1271697	0.91[EUR][1000 genomes]
rs13196590	0.83[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13202939	0.83[CEU][hapmap]
rs13211313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13211944	0.92[ASN][1000 genomes]
rs1341272	0.84[CEU][hapmap]
rs171272	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1741921	0.90[EUR][1000 genomes]
rs1741923	0.95[ASN][1000 genomes]
rs1741930	0.84[CEU][hapmap]
rs1761608	0.84[CEU][hapmap]
rs1766813	0.84[EUR][1000 genomes]
rs1766814	0.91[EUR][1000 genomes]
rs2483913	0.90[EUR][1000 genomes]
rs2884036	0.83[CEU][hapmap]
rs34774766	0.95[ASN][1000 genomes]
rs351716	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.84[TSI][hapmap];0.95[ASN][1000 genomes]
rs351717	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.87[TSI][hapmap];0.95[ASN][1000 genomes]
rs351718	0.95[ASN][1000 genomes]
rs351719	0.83[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs351720	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs351721	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs351722	0.95[ASN][1000 genomes]
rs351723	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs351724	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs351725	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs351726	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs351727	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs351728	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351730	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs351731	0.92[ASN][1000 genomes]
rs351732	0.91[ASN][1000 genomes]
rs351735	0.92[ASN][1000 genomes]
rs351736	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs351737	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs351742	1.00[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs351743	0.90[EUR][1000 genomes]
rs351744	0.98[ASN][1000 genomes]
rs351746	0.95[ASN][1000 genomes]
rs351747	0.95[ASN][1000 genomes]
rs351749	0.91[EUR][1000 genomes]
rs351750	0.95[ASN][1000 genomes]
rs351751	0.96[ASN][1000 genomes]
rs351752	0.91[EUR][1000 genomes]
rs353052	0.92[ASN][1000 genomes]
rs368467	0.84[CEU][hapmap]
rs371960	1.00[CEU][hapmap];0.89[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs377436	0.83[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs378447	0.91[EUR][1000 genomes]
rs381565	0.91[EUR][1000 genomes]
rs386696	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs388526	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392820	0.89[EUR][1000 genomes]
rs396000	0.84[CEU][hapmap]
rs396635	0.95[ASN][1000 genomes]
rs398944	0.91[EUR][1000 genomes]
rs399561	1.00[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs408944	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs412754	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs418093	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs419106	0.84[CEU][hapmap]
rs419998	0.90[EUR][1000 genomes]
rs421790	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs422113	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs427960	1.00[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs429534	0.95[ASN][1000 genomes]
rs4301336	0.83[CEU][hapmap]
rs435090	0.87[EUR][1000 genomes]
rs435611	0.91[EUR][1000 genomes]
rs436880	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs437779	0.90[EUR][1000 genomes]
rs440849	0.90[EUR][1000 genomes]
rs442405	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs445796	0.90[EUR][1000 genomes]
rs446974	0.83[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs448496	0.96[ASN][1000 genomes]
rs449736	0.83[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs449850	1.00[CEU][hapmap];0.90[GIH][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs455839	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs458185	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs458740	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs459956	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs461487	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs463503	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs463916	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs566164	0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs59673	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6919423	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6925339	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs830552	0.96[ASN][1000 genomes]
rs830554	0.83[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs830556	0.96[ASN][1000 genomes]
rs9320278	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9384701	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9386774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9386775	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9398188	0.91[EUR][1000 genomes]
rs9400276	0.83[CEU][hapmap]
rs9480910	0.90[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	nsv527657	chr6:109533385-109579675	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs410449	GSTM2P1	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109517200-109544800	Weak transcription	Psoas Muscle	Psoas
2	chr6:109535200-109543000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr6:109535200-109544000	Weak transcription	Aorta	Aorta
4	chr6:109535200-109545800	Weak transcription	Right Atrium	heart
5	chr6:109536000-109550800	Weak transcription	HSMMtube	muscle
6	chr6:109539000-109540200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:109539200-109540200	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr6:109539200-109540200	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr6:109539200-109540400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:109539600-109540400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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