Variant report

Variant	rs351723
Chromosome Location	chr6:109545547-109545548
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	chr6:109542871..109545801-chr6:109546672..109548924,2	K562	blood:
3	chr6:109545314..109548314-chr6:109702078..109706813,4	MCF-7	breast:
4	chr6:109545348..109547132-chr6:109572253..109575159,2	MCF-7	breast:
5	chr6:109544463..109546342-chr6:109549424..109551037,2	MCF-7	breast:
6	chr6:109544188..109545945-chr6:109546253..109548753,2	MCF-7	breast:

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

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs11153161	0.96[ASN][1000 genomes]
rs11153165	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs11153166	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11153167	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11153168	0.81[CEU][hapmap]
rs11964178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1260593	0.84[CEU][hapmap]
rs12664455	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1271693	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13196590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs13202939	0.82[CEU][hapmap]
rs13211313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13211944	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1741923	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2884036	0.82[CEU][hapmap]
rs34774766	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351716	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351717	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351718	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351719	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351722	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351726	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351728	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs351730	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs351731	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351732	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351735	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351736	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351737	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351742	0.83[CEU][hapmap]
rs351744	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs351746	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351747	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351750	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351751	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs353052	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs371960	0.83[CEU][hapmap]
rs377436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs386696	0.84[CEU][hapmap]
rs388526	0.96[ASN][1000 genomes]
rs396635	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs399561	0.83[CEU][hapmap]
rs408944	0.96[ASN][1000 genomes]
rs410449	0.96[ASN][1000 genomes]
rs412754	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs418093	0.94[ASN][1000 genomes]
rs421790	0.96[ASN][1000 genomes]
rs422113	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs427960	0.83[CEU][hapmap]
rs429534	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4301336	0.82[CEU][hapmap]
rs436880	0.95[ASN][1000 genomes]
rs442405	0.84[CEU][hapmap]
rs446974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs448496	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs449736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs449850	0.83[CEU][hapmap]
rs4548045	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs455839	0.84[CEU][hapmap]
rs458185	0.84[CEU][hapmap]
rs458740	0.86[CEU][hapmap]
rs459956	0.84[CEU][hapmap]
rs461487	0.83[CEU][hapmap]
rs463503	0.87[CEU][hapmap]
rs463916	0.84[CEU][hapmap]
rs55677234	0.80[EUR][1000 genomes]
rs566164	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59673	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919423	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6925339	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7773490	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs830552	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs830554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs830556	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9320278	0.98[ASN][1000 genomes]
rs9374076	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9384701	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9386774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9386775	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9386779	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9400265	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9400276	0.82[CEU][hapmap]
rs9487049	0.81[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

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109535200-109545800	Weak transcription	Right Atrium	heart
2	chr6:109536000-109550800	Weak transcription	HSMMtube	muscle
3	chr6:109542400-109547800	Weak transcription	Stomach Mucosa	stomach
4	chr6:109544200-109546800	Weak transcription	Aorta	Aorta
5	chr6:109544800-109547200	Enhancers	Psoas Muscle	Psoas
6	chr6:109545000-109546400	Enhancers	Pancreatic Islets	Pancreatic Islet
7	chr6:109545000-109546600	Enhancers	Primary T cells from cord blood	blood
8	chr6:109545200-109545600	Active TSS	Skeletal Muscle Male	skeletal muscle
9	chr6:109545400-109545600	Enhancers	Spleen	Spleen
10	chr6:109545400-109546200	Enhancers	Fetal Thymus	thymus
11	chr6:109545400-109546200	Enhancers	Thymus	Thymus
12	chr6:109545400-109546600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links