Variant report

Variant	rs6839548
Chromosome Location	chr4:151554908-151554909
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10000491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10000655	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10025007	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10025414	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[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10155442	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10520078	0.86[GIH][hapmap]
rs10857247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11099773	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11099774	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11931175	0.84[EUR][1000 genomes]
rs12108435	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12499862	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12508892	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12642528	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1504784	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs1532822	0.84[EUR][1000 genomes]
rs17027030	1.00[CEU][hapmap]
rs17027034	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs28451271	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4235250	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4269161	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4270570	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4289432	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4311291	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4318628	0.84[GIH][hapmap]
rs4327465	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4328896	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4330340	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4355367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4358377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4376124	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4396972	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4401437	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4417951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4431210	1.00[CEU][hapmap]
rs4450905	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4476581	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4533751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4568218	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4604037	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4619872	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4619873	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4696186	0.84[EUR][1000 genomes]
rs4696214	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4696220	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[TSI][hapmap];0.84[YRI][hapmap]
rs4696537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4696629	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61371689	0.82[AMR][1000 genomes]
rs68016242	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6818709	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6825990	0.95[EUR][1000 genomes]
rs6826248	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6832498	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6835367	0.92[GIH][hapmap]
rs6836017	1.00[CEU][hapmap];0.94[GIH][hapmap];0.82[TSI][hapmap];0.84[YRI][hapmap]
rs6846154	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6847725	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6851587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6852493	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6852703	0.88[EUR][1000 genomes]
rs6855667	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6858267	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7671045	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7686220	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7692615	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971640	1.00[CEU][hapmap]
rs9790393	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9995388	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9995612	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9997018	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880256	chr4:151126725-151751369	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv817540	chr4:151228965-151858609	Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869051	chr4:151347901-151737781	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1024820	chr4:151364078-151943561	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv1018942	chr4:151423295-151556444	ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv537301	chr4:151423295-151556444	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1032070	chr4:151514664-151775259	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv880261	chr4:151521933-151588483	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv830113	chr4:151538184-151691942	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv964002	chr4:151552346-151559600	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:151487200-151655000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr4:151501200-151559800	Weak transcription	Ovary	ovary
3	chr4:151512400-151556000	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr4:151520400-151556200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr4:151533400-151596200	Weak transcription	Primary hematopoietic stem cells	blood
6	chr4:151537600-151559600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr4:151541600-151557800	Weak transcription	Pancreas	Pancrea
8	chr4:151553800-151556200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr4:151554000-151555400	Strong transcription	Primary B cells from cord blood	blood
10	chr4:151554400-151557000	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr4:151554600-151555000	ZNF genes & repeats	Primary T cells from cord blood	blood
12	chr4:151554600-151555200	ZNF genes & repeats	Aorta	Aorta
13	chr4:151554800-151556200	Weak transcription	HMEC	breast
14	chr4:151554800-151585200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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