Variant report

Variant	rs10484541
Chromosome Location	chr6:28371346-28371347
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28364231..28371937-chr6:28372195..28378158,17	K562	blood:
2	chr6:28114111..28116843-chr6:28370427..28372870,2	K562	blood:
3	chr6:28369764..28371489-chr6:28380154..28383821,4	K562	blood:
4	chr6:28302778..28306478-chr6:28369638..28373643,3	K562	blood:
5	chr6:28370825..28372910-chr6:28390622..28392729,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251877	Chromatin interaction
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1015690	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10484540	0.81[EUR][1000 genomes]
rs12661782	1.00[YRI][hapmap]
rs1555046	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1555047	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1556957	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs16893801	0.82[CHB][hapmap]
rs16894012	0.86[AFR][1000 genomes]
rs16894038	0.93[AFR][1000 genomes]
rs16894121	1.00[CEU][hapmap]
rs17313059	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17313276	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17314224	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17314865	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs17314991	0.85[CEU][hapmap];0.82[CHB][hapmap];0.81[EUR][1000 genomes]
rs17315340	0.81[EUR][1000 genomes]
rs17315648	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17315739	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs17316033	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17392982	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17393066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17393342	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs17393506	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17393786	0.81[EUR][1000 genomes]
rs17393918	0.81[EUR][1000 genomes]
rs17393939	0.81[EUR][1000 genomes]
rs17720687	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs2027362	0.81[EUR][1000 genomes]
rs2072318	0.81[EUR][1000 genomes]
rs2072319	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs213231	0.85[CEU][hapmap]
rs2232419	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2232434	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2232438	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2299030	1.00[CHB][hapmap]
rs3734562	0.81[EUR][1000 genomes]
rs56001748	0.81[EUR][1000 genomes]
rs56241479	0.81[EUR][1000 genomes]
rs56787378	0.81[EUR][1000 genomes]
rs57126418	0.81[EUR][1000 genomes]
rs57204212	0.81[EUR][1000 genomes]
rs59732975	0.81[EUR][1000 genomes]
rs60184496	0.81[EUR][1000 genomes]
rs60660967	0.81[EUR][1000 genomes]
rs6915122	0.81[EUR][1000 genomes]
rs73740620	0.81[EUR][1000 genomes]
rs73740622	0.81[EUR][1000 genomes]
rs73740623	0.81[EUR][1000 genomes]
rs73742547	0.81[EUR][1000 genomes]
rs73742550	0.81[EUR][1000 genomes]
rs73742551	0.81[EUR][1000 genomes]
rs73742555	0.81[EUR][1000 genomes]
rs73742558	0.81[EUR][1000 genomes]
rs758396	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7774788	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9717944	0.81[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10484541	ZSCAN12	cis	multi-tissue	Pritchard

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28371200-28374000	Weak transcription	K562	blood
2	chr6:28371200-28410400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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