Variant report

Variant	rs9487324
Chromosome Location	chr6:110570105-110570106
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:110567589..110570352-chr6:110572433..110574667,2	K562	blood:
2	chr6:110567589..110570454-chr6:110572413..110574667,3	K562	blood:
3	chr6:110563724..110566253-chr6:110569811..110571861,3	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12662099	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12662559	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12664697	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12665152	0.84[ASN][1000 genomes]
rs12665178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2361500	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs2878176	0.82[ASN][1000 genomes]
rs3806158	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs3828928	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs41288574	0.83[ASN][1000 genomes]
rs41288576	0.84[ASN][1000 genomes]
rs57771959	0.83[ASN][1000 genomes]
rs58965432	0.83[ASN][1000 genomes]
rs60105161	0.83[ASN][1000 genomes]
rs61494781	0.84[ASN][1000 genomes]
rs6918158	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6927464	0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6935544	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs6937364	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs6940347	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs6941101	0.83[ASN][1000 genomes]
rs7771649	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs7774094	0.84[ASN][1000 genomes]
rs9487320	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948824	chr6:110443685-110889332	Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv949643	chr6:110537685-110889332	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv3474885	chr6:110569364-110572206	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv3474887	chr6:110569723-110571890	Enhancers Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv14089	chr6:110569724-110571891	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3474888	chr6:110569737-110571886	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv604501	chr6:110569825-110570985	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv604502	chr6:110569825-110571154	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv604503	chr6:110569825-110571261	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv604504	chr6:110569825-110571293	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv604505	chr6:110569825-110571515	Strong transcription Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv604506	chr6:110569825-110571641	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9487324	CDC40	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110539000-110580200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:110547000-110576600	Weak transcription	Pancreas	Pancrea
3	chr6:110549400-110580400	Weak transcription	Brain Angular Gyrus	brain
4	chr6:110550600-110608200	Weak transcription	Fetal Kidney	kidney
5	chr6:110554000-110571400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:110554400-110572600	Weak transcription	Aorta	Aorta
7	chr6:110555400-110570800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr6:110556000-110571400	Weak transcription	Primary T cells from cord blood	blood
9	chr6:110557800-110570600	Weak transcription	Primary B cells from cord blood	blood
10	chr6:110559200-110572400	Weak transcription	Liver	Liver
11	chr6:110559400-110571200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:110559400-110572800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:110559400-110573400	Weak transcription	Brain Hippocampus Middle	brain
14	chr6:110564400-110571000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:110567400-110574200	Weak transcription	Fetal Stomach	stomach
16	chr6:110567400-110604600	Weak transcription	Ovary	ovary
17	chr6:110567600-110604600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr6:110568000-110570400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:110568000-110571200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:110569800-110571400	Weak transcription	Stomach Smooth Muscle	stomach

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