Variant report

Variant	rs2298986
Chromosome Location	chr4:110886149-110886150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:110880113..110882132-chr4:110884747..110887034,2	MCF-7	breast:
2	chr4:110884465..110887295-chr4:110887593..110889209,2	K562	blood:
3	chr4:110884397..110887295-chr4:110887313..110889209,2	K562	blood:

Variant related genes	Relation type
ENSG00000138798	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11568895	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11568943	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11568978	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs11569017	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs11569019	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs11569020	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs11569121	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs11569126	0.81[JPT][hapmap]
rs11932661	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12374273	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2237042	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2250724	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2255355	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs2298981	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2298982	0.87[CEU][hapmap];0.94[EUR][1000 genomes]
rs2298996	0.87[CEU][hapmap];0.94[CHB][hapmap]
rs2299001	0.81[JPT][hapmap]
rs2347138	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2881560	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35368137	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35860692	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3733625	0.81[JPT][hapmap]
rs3756261	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs3756262	0.87[ASN][1000 genomes]
rs3796947	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4141078	0.94[EUR][1000 genomes]
rs57890638	0.83[ASN][1000 genomes]
rs59744250	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61459968	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6533476	0.87[ASN][1000 genomes]
rs6533477	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6533478	0.87[ASN][1000 genomes]
rs6533479	0.87[ASN][1000 genomes]
rs6823529	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72894512	0.87[ASN][1000 genomes]
rs72894516	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs730598	0.80[JPT][hapmap]
rs7661766	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7661968	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7670908	1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs7699332	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9991367	0.94[CHB][hapmap];0.88[JPT][hapmap];0.81[ASN][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	nsv530156	chr4:110721397-110911297	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 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	chr4:110860600-110906600	Weak transcription	Psoas Muscle	Psoas
2	chr4:110869600-110888000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:110874400-110889000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:110875600-110909800	Weak transcription	Pancreas	Pancrea
5	chr4:110883400-110886400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr4:110884200-110893600	Weak transcription	Fetal Heart	heart
7	chr4:110885800-110897200	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr4:110885800-110909800	Weak transcription	Left Ventricle	heart
9	chr4:110886000-110888000	Weak transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links