Variant report

Variant	rs1237873
Chromosome Location	chr6:28158954-28158955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28153478..28156005-chr6:28158043..28160131,2	K562	blood:
2	chr6:28153118..28157382-chr6:28158456..28161800,4	MCF-7	breast:
3	chr6:28158814..28161708-chr6:28217777..28220100,2	MCF-7	breast:
4	chr6:28107476..28109917-chr6:28158452..28160425,2	K562	blood:
5	chr6:28156465..28159430-chr6:28159860..28163275,3	K562	blood:

Variant related genes	Relation type
ENSG00000218016	Chromatin interaction
ENSG00000187626	Chromatin interaction
ENSG00000198315	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1150672	0.94[AFR][1000 genomes]
rs1150674	0.98[AFR][1000 genomes]
rs1150676	0.83[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes]
rs1150680	0.83[JPT][hapmap];0.85[YRI][hapmap];0.98[AFR][1000 genomes]
rs1150683	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes]
rs1150684	0.96[AFR][1000 genomes]
rs1225593	0.85[YRI][hapmap]
rs1225594	0.94[AFR][1000 genomes]
rs1225709	0.82[ASW][hapmap];0.83[JPT][hapmap];0.88[LWK][hapmap]
rs1225711	0.96[AFR][1000 genomes]
rs1233784	0.96[AFR][1000 genomes]
rs1416997	0.82[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes]
rs1480646	0.83[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes]
rs149957	1.00[ASW][hapmap];0.87[LWK][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes]
rs156741	1.00[ASW][hapmap]
rs156742	1.00[ASW][hapmap]
rs1613149	0.82[JPT][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes]
rs1619221	0.85[YRI][hapmap]
rs1654777	0.94[AFR][1000 genomes]
rs1654778	0.94[AFR][1000 genomes]
rs169432	0.83[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs169433	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs172164	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes]
rs175955	0.85[YRI][hapmap]
rs1770130	0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs1770132	0.92[YRI][hapmap]
rs1770133	0.94[AFR][1000 genomes]
rs1871695	1.00[ASW][hapmap];0.83[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes]
rs203865	0.83[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs203868	0.90[AFR][1000 genomes]
rs203870	0.83[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes]
rs203871	0.81[AFR][1000 genomes]
rs203874	0.92[YRI][hapmap]
rs203875	0.98[AFR][1000 genomes]
rs203881	0.90[AFR][1000 genomes]
rs203885	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs203891	0.96[AFR][1000 genomes]
rs203894	0.83[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs2622318	0.85[YRI][hapmap]
rs2622321	0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs2791334	0.82[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes]
rs370266	0.96[AFR][1000 genomes]
rs392665	0.96[AFR][1000 genomes]
rs427348	1.00[ASW][hapmap];0.83[JPT][hapmap];0.95[LWK][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]
rs539474	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes]
rs57349346	0.98[AFR][1000 genomes]
rs58909320	0.96[AFR][1000 genomes]
rs73742609	0.96[AFR][1000 genomes]
rs9348791	0.90[AFR][1000 genomes]
rs9348795	1.00[ASW][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes]
rs9368562	0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883514	chr6:28155418-28185726	Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv883515	chr6:28156476-28181675	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv883516	chr6:28156476-28185726	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1237873	ZNF323	cis	brain	BrainEAC
rs1237873	ZNF323	cis	frontal cortex	BrainEAC

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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