Variant report

Variant	rs55668789
Chromosome Location	chr5:178260478-178260479
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178228775..178231759-chr5:178257850..178260513,2	MCF-7	breast:
2	chr5:178258610..178261483-chr5:178285999..178288925,2	K562	blood:

Variant related genes	Relation type
ENSG00000178338	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10903231	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10903232	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10903233	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249581	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249582	0.88[ASN][1000 genomes]
rs11249583	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249584	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249589	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249590	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249591	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11249592	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11738631	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11741533	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11741619	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11743902	0.88[ASN][1000 genomes]
rs11952175	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11952214	0.88[ASN][1000 genomes]
rs11952453	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12054925	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12054934	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12055051	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12055057	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12152723	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12153004	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12153245	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13160205	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13162024	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13165291	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13165500	0.87[ASN][1000 genomes]
rs13166454	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13170345	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs13171941	0.80[AMR][1000 genomes]
rs13173488	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13173515	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13174478	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13174626	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13174654	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13177176	0.88[ASN][1000 genomes]
rs13177181	0.88[ASN][1000 genomes]
rs13179543	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13179553	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13183523	0.83[AMR][1000 genomes]
rs13183856	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13184377	0.88[ASN][1000 genomes]
rs13184665	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28397824	0.87[ASN][1000 genomes]
rs34025705	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34124262	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34671298	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34720930	0.88[ASN][1000 genomes]
rs34751264	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34788472	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34798599	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35190196	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35854619	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35869133	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35886217	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62393027	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62393028	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66505308	0.84[ASN][1000 genomes]
rs67009518	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67665237	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67741599	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71594798	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71611464	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71611465	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71611466	0.90[ASN][1000 genomes]
rs71611468	0.83[ASN][1000 genomes]
rs71611469	0.83[ASN][1000 genomes]
rs72814653	0.80[ASN][1000 genomes]
rs72814655	0.81[ASN][1000 genomes]
rs72814656	0.85[ASN][1000 genomes]
rs72814671	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7442757	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]

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	esv18838	chr5:178258606-178266167	ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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