Variant report

Variant	rs807527
Chromosome Location	chr6:24544475-24544476
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24534085..24537392-chr6:24543907..24547453,3	K562	blood:
2	chr6:24541947..24545276-chr6:24695054..24697889,3	MCF-7	breast:
3	chr6:24544075..24545945-chr6:24559657..24561591,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1569579	0.81[MEX][hapmap]
rs2247845	0.83[AMR][1000 genomes]
rs2744572	0.80[MEX][hapmap]
rs2744593	0.84[AMR][1000 genomes]
rs2744594	0.84[CEU][hapmap];0.91[CHB][hapmap];0.95[MEX][hapmap];0.88[AMR][1000 genomes]
rs2744597	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.90[MEX][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2760186	0.82[AMR][1000 genomes]
rs2817232	0.84[AMR][1000 genomes]
rs2817233	0.83[AMR][1000 genomes]
rs807510	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807518	0.91[CEU][hapmap];0.91[CHB][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs807519	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[MEX][hapmap];0.88[AMR][1000 genomes]
rs807529	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807531	0.91[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs807532	0.91[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.91[YRI][hapmap];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807538	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs807540	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs807542	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs807543	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9393563	0.86[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34020	chr6:24481299-24606036	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs807527	HIST1H4E	cis	parietal	SCAN
rs807527	HIST1H4C	cis	parietal	SCAN
rs807527	ZNF165	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24496200-24583000	Weak transcription	Hela-S3	cervix
2	chr6:24509400-24545800	Weak transcription	Small Intestine	intestine
3	chr6:24532200-24545000	Weak transcription	K562	blood
4	chr6:24535000-24546200	Weak transcription	Pancreas	Pancrea
5	chr6:24535000-24547400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:24535200-24566600	Weak transcription	Brain Germinal Matrix	brain
7	chr6:24535200-24591200	Weak transcription	Fetal Brain Male	brain
8	chr6:24535400-24550000	Weak transcription	Gastric	stomach
9	chr6:24535600-24546000	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:24535600-24546800	Weak transcription	Dnd41	blood
11	chr6:24535600-24547400	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr6:24535600-24560600	Weak transcription	Brain Anterior Caudate	brain
13	chr6:24535600-24560600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:24535600-24563200	Weak transcription	Brain Angular Gyrus	brain
15	chr6:24535600-24583400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:24537000-24545400	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:24537000-24546200	Weak transcription	Fetal Heart	heart
18	chr6:24538200-24544600	Weak transcription	Stomach Smooth Muscle	stomach
19	chr6:24538200-24545800	Weak transcription	Aorta	Aorta
20	chr6:24538200-24546000	Weak transcription	HepG2	liver
21	chr6:24538200-24547400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr6:24538400-24547400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:24539200-24583200	Weak transcription	Fetal Intestine Small	intestine
24	chr6:24540200-24556200	Weak transcription	Fetal Brain Female	brain
25	chr6:24540800-24546400	Weak transcription	Liver	Liver
26	chr6:24540800-24547400	Weak transcription	Fetal Thymus	thymus
27	chr6:24540800-24547400	Weak transcription	Thymus	Thymus
28	chr6:24540800-24547600	Weak transcription	Fetal Stomach	stomach

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