Variant report

Variant	rs6881428
Chromosome Location	chr5:178257017-178257018
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:178250159..178253046-chr5:178256116..178259012,3	MCF-7	breast:
2	chr5:178251481..178253894-chr5:178255525..178257493,2	K562	blood:
3	chr5:178256899..178257517-chr5:178489612..178490272,2	K562	blood:
4	chr5:178252394..178254113-chr5:178255346..178258174,3	K562	blood:
5	chr5:178251204..178253302-chr5:178256012..178257744,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11952924	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs12655252	0.84[ASN][1000 genomes]
rs12656659	0.89[CEU][hapmap]
rs12658342	0.88[EUR][1000 genomes]
rs13174784	0.89[CHB][hapmap];1.00[CHD][hapmap]
rs35580826	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58628353	0.84[ASN][1000 genomes]
rs61484383	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6600954	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6600955	0.89[CHB][hapmap]
rs6600956	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6600967	0.89[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6867346	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874045	0.90[EUR][1000 genomes]
rs73324174	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73330587	1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs73341509	0.88[EUR][1000 genomes]
rs73341510	0.88[EUR][1000 genomes]
rs73341513	0.86[EUR][1000 genomes]
rs73341521	0.88[EUR][1000 genomes]
rs73341529	0.90[EUR][1000 genomes]
rs73341553	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7444422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.90[EUR][1000 genomes]
rs7706132	0.84[ASN][1000 genomes]
rs7713247	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap]
rs7720287	0.88[EUR][1000 genomes]
rs7720407	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7722026	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.90[EUR][1000 genomes]
rs7725396	0.89[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];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7733056	1.00[CHB][hapmap];0.92[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031206	chr5:178149292-178283614	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv537973	chr5:178149292-178283614	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv968861	chr5:178251700-178275142	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv600453	chr5:178252366-178259787	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178253200-178257800	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr5:178254000-178259400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:178254200-178259400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:178254400-178258200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:178255800-178257200	Enhancers	H9 Cell Line	embryonic stem cell
6	chr5:178255800-178257200	Bivalent Enhancer	Fetal Brain Male	brain
7	chr5:178255800-178257600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr5:178256000-178257200	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr5:178256400-178257200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr5:178256400-178258600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:178256600-178258200	Weak transcription	K562	blood
12	chr5:178256800-178257200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:178257000-178257200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr5:178257000-178257200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr5:178257000-178257400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links