Variant report

Variant	rs2162108
Chromosome Location	chr4:143418833-143418834
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143417636..143419630-chr4:143766878..143768901,2	MCF-7	breast:
2	chr4:143413858..143417605-chr4:143417638..143420686,5	MCF-7	breast:
3	chr4:143392241..143398966-chr4:143412985..143424496,30	MCF-7	breast:
4	chr4:143418608..143422972-chr4:143431546..143435258,5	MCF-7	breast:
5	chr4:143388381..143398737-chr4:143415738..143428678,26	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10012476	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10015184	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1013397	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12642500	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12643136	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12644565	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12646243	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12649139	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1364917	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1364918	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1364919	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1364920	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1364926	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1425534	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425538	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17016170	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs17016207	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17016248	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17016284	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17016304	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2042644	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2113997	0.90[ASN][1000 genomes]
rs2322705	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2322706	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2322796	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28510314	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28823374	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs28850298	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28861843	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs34900920	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4345256	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs57724540	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59784151	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60004938	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6823362	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7668133	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7672965	0.80[ASN][1000 genomes]
rs7699408	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9308152	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9986090	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9998089	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2762467	chr4:143412932-143420262	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143415400-143419000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr4:143418400-143419000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr4:143418400-143419600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr4:143418600-143419200	Enhancers	Fetal Heart	heart

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