Variant report

Variant	rs351724
Chromosome Location	chr6:109546577-109546578
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109545507..109547135-chr6:109557323..109558831,2	MCF-7	breast:
2	chr6:109545979..109548369-chr6:109549835..109551371,2	K562	blood:
3	chr6:109544188..109545945-chr6:109546253..109548753,2	MCF-7	breast:
4	chr6:109545314..109548314-chr6:109702078..109706813,4	MCF-7	breast:
5	chr6:109545348..109547132-chr6:109572253..109575159,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135535	Chromatin interaction
ENSG00000260273	Chromatin interaction
ENSG00000243587	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1008084	0.85[CEU][hapmap]
rs10447414	0.82[EUR][1000 genomes]
rs11153161	0.87[EUR][1000 genomes]
rs11153165	0.81[CEU][hapmap]
rs11153168	0.88[CEU][hapmap]
rs1146246	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11964178	0.81[EUR][1000 genomes]
rs11966072	0.83[CEU][hapmap]
rs12176068	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1260593	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1260594	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1260595	0.89[CEU][hapmap];0.82[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1260596	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs1269172	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1271697	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13196219	0.84[CEU][hapmap]
rs13196590	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs13200047	0.88[CEU][hapmap]
rs13211313	0.81[EUR][1000 genomes]
rs1341271	0.84[CEU][hapmap]
rs1341272	0.92[CEU][hapmap];0.93[YRI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs171272	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs173288	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1741921	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1741930	0.89[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1761608	0.92[CEU][hapmap];0.86[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1766813	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1766814	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2483913	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34527629	0.84[EUR][1000 genomes]
rs351716	0.80[CEU][hapmap]
rs351717	0.80[CEU][hapmap]
rs351720	0.81[CEU][hapmap]
rs351725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351727	0.81[CEU][hapmap]
rs351728	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs351736	0.81[CEU][hapmap]
rs351737	0.80[CEU][hapmap]
rs351739	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs351742	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351743	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351745	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs351748	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs351749	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351752	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351754	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs351755	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs351756	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs352837	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs368467	0.89[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs371960	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs378447	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs380774	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs381565	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs386696	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs388526	0.87[EUR][1000 genomes]
rs392820	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs396000	0.92[CEU][hapmap];0.86[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs398944	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs399561	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs410449	0.87[EUR][1000 genomes]
rs418093	0.87[EUR][1000 genomes]
rs419106	0.92[CEU][hapmap];0.86[YRI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs419998	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs421790	0.87[EUR][1000 genomes]
rs427960	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs435090	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs435611	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs436880	0.91[EUR][1000 genomes]
rs437779	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs440849	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs442405	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs445796	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs449850	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs455839	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs458185	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs458740	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs459956	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs461487	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs463503	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs463916	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs566164	0.83[CEU][hapmap]
rs6568571	0.84[CEU][hapmap]
rs670414	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6919423	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6925339	0.80[CEU][hapmap]
rs7748918	0.84[CEU][hapmap]
rs7773490	0.81[CEU][hapmap]
rs830553	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9320278	0.80[EUR][1000 genomes]
rs9374080	0.84[CEU][hapmap]
rs9374081	0.84[CEU][hapmap]
rs9386774	0.81[EUR][1000 genomes]
rs9386775	0.81[EUR][1000 genomes]
rs9386796	0.84[CEU][hapmap]
rs9398188	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9400272	0.84[CEU][hapmap]
rs9400273	0.84[CEU][hapmap]
rs9480910	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487003	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9487048	0.84[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	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

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109536000-109550800	Weak transcription	HSMMtube	muscle
2	chr6:109542400-109547800	Weak transcription	Stomach Mucosa	stomach
3	chr6:109544200-109546800	Weak transcription	Aorta	Aorta
4	chr6:109544800-109547200	Enhancers	Psoas Muscle	Psoas
5	chr6:109545000-109546600	Enhancers	Primary T cells from cord blood	blood
6	chr6:109545400-109546600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
7	chr6:109545600-109546600	Weak transcription	Spleen	Spleen
8	chr6:109545600-109547000	Enhancers	Fetal Muscle Leg	muscle
9	chr6:109546400-109547200	Enhancers	Skeletal Muscle Male	skeletal muscle

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