Variant report

Variant	rs6438030
Chromosome Location	chr3:111797893-111797894
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:111795641..111798787-chr3:111803858..111806431,4	MCF-7	breast:
2	chr3:111792824..111796051-chr3:111796443..111799498,4	MCF-7	breast:
3	chr3:111792401..111798775-chr3:111803596..111811380,13	MCF-7	breast:
4	chr3:111797278..111800126-chr3:111805062..111806679,2	K562	blood:
5	chr3:111792644..111794499-chr3:111797268..111798908,2	K562	blood:

Variant related genes	Relation type
ENSG00000114529	Chromatin interaction

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs1492488	0.86[CHD][hapmap]
rs168151	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs16858901	1.00[CEU][hapmap]
rs16859128	1.00[EUR][1000 genomes]
rs16859129	1.00[EUR][1000 genomes]
rs16859130	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs16859132	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs16859217	0.86[CHD][hapmap]
rs16859233	0.85[CHD][hapmap]
rs16859259	0.86[CHD][hapmap]
rs16859261	0.86[CHD][hapmap]
rs55715811	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55753652	1.00[EUR][1000 genomes]
rs55765202	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55785728	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55913382	1.00[EUR][1000 genomes]
rs55955608	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55968036	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56008240	1.00[EUR][1000 genomes]
rs56060014	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56115505	1.00[EUR][1000 genomes]
rs56127415	1.00[EUR][1000 genomes]
rs56154908	1.00[EUR][1000 genomes]
rs56173481	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56188318	0.81[ASN][1000 genomes]
rs56200934	1.00[EUR][1000 genomes]
rs56235140	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56238410	1.00[EUR][1000 genomes]
rs56404440	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56801397	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57441805	1.00[EUR][1000 genomes]
rs57606311	1.00[EUR][1000 genomes]
rs57621014	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57643560	1.00[EUR][1000 genomes]
rs57851365	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58430773	1.00[EUR][1000 genomes]
rs58489543	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58766302	1.00[EUR][1000 genomes]
rs58840068	0.85[ASN][1000 genomes]
rs58899626	1.00[EUR][1000 genomes]
rs59888587	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60011279	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60031977	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60032749	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60100513	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60361907	1.00[EUR][1000 genomes]
rs60504992	1.00[EUR][1000 genomes]
rs60529752	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60562037	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60596183	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60746737	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61233651	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61250978	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61729755	1.00[ASN][1000 genomes]
rs6438029	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438036	1.00[EUR][1000 genomes]
rs6765246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6765524	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6768781	1.00[EUR][1000 genomes]
rs6769390	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769595	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770127	1.00[CEU][hapmap]
rs6771394	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771530	1.00[EUR][1000 genomes]
rs6774728	1.00[CEU][hapmap]
rs6776494	1.00[EUR][1000 genomes]
rs6779013	1.00[EUR][1000 genomes]
rs6785852	1.00[EUR][1000 genomes]
rs6787297	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794018	1.00[EUR][1000 genomes]
rs6794057	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6806972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809741	1.00[EUR][1000 genomes]
rs73853296	1.00[EUR][1000 genomes]
rs73853298	1.00[EUR][1000 genomes]
rs73853300	1.00[EUR][1000 genomes]
rs73853302	1.00[EUR][1000 genomes]
rs73853307	1.00[EUR][1000 genomes]
rs73853320	1.00[EUR][1000 genomes]
rs73853321	1.00[EUR][1000 genomes]
rs73853325	1.00[EUR][1000 genomes]
rs73853326	1.00[EUR][1000 genomes]
rs73853328	1.00[EUR][1000 genomes]
rs73853364	1.00[EUR][1000 genomes]
rs73853368	1.00[EUR][1000 genomes]
rs73853377	1.00[EUR][1000 genomes]
rs73856303	1.00[EUR][1000 genomes]
rs73856304	1.00[EUR][1000 genomes]
rs73856305	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73856331	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856333	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856334	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856335	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856336	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856337	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73856338	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856339	1.00[EUR][1000 genomes]
rs73856340	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856342	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856343	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856344	1.00[EUR][1000 genomes]
rs73856345	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856346	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856347	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856348	1.00[EUR][1000 genomes]
rs73856349	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856351	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856353	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73856356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73856357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73856358	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73856362	1.00[EUR][1000 genomes]
rs73856369	1.00[EUR][1000 genomes]
rs7620996	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7621597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627472	1.00[EUR][1000 genomes]
rs7631233	1.00[EUR][1000 genomes]
rs7644889	1.00[CEU][hapmap]
rs7648969	1.00[EUR][1000 genomes]
rs7649379	0.86[CHD][hapmap]
rs774859	1.00[CEU][hapmap]
rs9755693	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9755713	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9755719	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9756558	1.00[EUR][1000 genomes]
rs9756806	1.00[EUR][1000 genomes];1.00[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	esv2755927	chr3:111794310-111834310	Enhancers Flanking Active TSS Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111794800-111804800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr3:111795200-111803000	Weak transcription	Primary T cells from cord blood	blood
3	chr3:111795200-111804200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:111795200-111804800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:111797400-111803400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:111797600-111803000	Weak transcription	Fetal Thymus	thymus

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