Variant report

Variant	rs55641255
Chromosome Location	chr5:178258546-178258547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178250159..178253046-chr5:178256116..178259012,3	MCF-7	breast:
2	chr5:178228775..178231759-chr5:178257850..178260513,2	MCF-7	breast:

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10903231	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10903232	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10903233	0.87[ASN][1000 genomes]
rs11249580	0.90[ASN][1000 genomes]
rs11249581	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249582	0.87[ASN][1000 genomes]
rs11249583	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249584	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249589	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249590	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249591	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249592	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11738631	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11739648	0.88[ASN][1000 genomes]
rs11741533	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11742485	0.80[ASN][1000 genomes]
rs11743902	0.87[ASN][1000 genomes]
rs11747183	0.85[ASN][1000 genomes]
rs11747490	0.90[ASN][1000 genomes]
rs11747908	0.83[ASN][1000 genomes]
rs11749468	0.86[ASN][1000 genomes]
rs11750068	0.90[ASN][1000 genomes]
rs11750817	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11952175	0.87[ASN][1000 genomes]
rs11952214	0.87[ASN][1000 genomes]
rs11952453	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12054925	0.87[ASN][1000 genomes]
rs12054934	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12054952	0.83[ASN][1000 genomes]
rs12055051	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12055057	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12055318	0.83[ASN][1000 genomes]
rs12055319	0.83[ASN][1000 genomes]
rs12152723	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12153004	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12153245	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12186812	0.91[ASN][1000 genomes]
rs13160205	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13162024	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13163348	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13163995	0.88[ASN][1000 genomes]
rs13165291	0.86[ASN][1000 genomes]
rs13165500	0.86[ASN][1000 genomes]
rs13171941	0.84[ASN][1000 genomes]
rs13173488	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13173515	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13174478	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13174626	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13174654	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13177176	0.87[ASN][1000 genomes]
rs13177181	0.87[ASN][1000 genomes]
rs13181764	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13183235	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13183254	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13183856	0.85[ASN][1000 genomes]
rs13184377	0.87[ASN][1000 genomes]
rs13184665	0.83[ASN][1000 genomes]
rs13187283	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28397824	0.86[ASN][1000 genomes]
rs28786208	0.89[ASN][1000 genomes]
rs34025705	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34030500	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34124262	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34325875	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34671298	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34720930	0.87[ASN][1000 genomes]
rs34742934	0.83[ASN][1000 genomes]
rs34744054	0.81[ASN][1000 genomes]
rs34751264	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34798599	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34905117	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35070400	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35190196	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35316460	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35429406	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35714569	0.88[ASN][1000 genomes]
rs35721293	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35854619	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35869133	0.87[ASN][1000 genomes]
rs55773401	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62392962	0.83[ASN][1000 genomes]
rs62392963	0.83[ASN][1000 genomes]
rs62393027	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62393028	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66505308	0.83[ASN][1000 genomes]
rs67009518	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67665237	0.87[ASN][1000 genomes]
rs67741599	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67875835	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71594798	0.87[ASN][1000 genomes]
rs71611463	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71611464	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71611465	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71611466	0.87[ASN][1000 genomes]
rs71611468	0.82[ASN][1000 genomes]
rs71611469	0.82[ASN][1000 genomes]
rs72814640	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72814653	0.90[ASN][1000 genomes]
rs72814655	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72814656	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72814671	0.87[ASN][1000 genomes]
rs7442757	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7443212	0.83[ASN][1000 genomes]
rs7446411	0.83[ASN][1000 genomes]
rs7708433	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7722023	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
6	nsv600454	chr5:178257859-178259891	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178254000-178259400	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr5:178254200-178259400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr5:178256400-178258600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr5:178257200-178259200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr5:178257200-178259400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:178257600-178259400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:178257800-178258800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
8	chr5:178258200-178259800	Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr5:178258200-178260000	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr5:178258400-178258800	Flanking Active TSS	K562	blood

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