Variant report

Variant	rs9813363
Chromosome Location	chr3:133604743-133604744
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133600203..133603946-chr3:133604240..133607293,3	MCF-7	breast:
2	chr3:133599032..133602224-chr3:133604113..133606875,3	MCF-7	breast:
3	chr3:133604700..133606393-chr3:133610584..133612125,2	MCF-7	breast:
4	chr3:133583134..133585142-chr3:133602541..133605279,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10212397	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10935088	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11706007	0.88[ASN][1000 genomes]
rs12492380	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13325953	0.88[ASN][1000 genomes]
rs1589900	0.88[ASN][1000 genomes]
rs16841102	0.95[YRI][hapmap]
rs1880667	0.86[JPT][hapmap]
rs1917781	0.86[JPT][hapmap]
rs2222633	0.88[ASN][1000 genomes]
rs2222634	0.88[ASN][1000 genomes]
rs2370639	0.88[ASN][1000 genomes]
rs3811663	0.89[ASN][1000 genomes]
rs6762758	0.83[ASN][1000 genomes]
rs6787108	0.83[ASN][1000 genomes]
rs6789631	0.93[YRI][hapmap]
rs7636726	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7638839	0.88[ASN][1000 genomes]
rs7641276	0.88[ASN][1000 genomes]
rs7651963	0.88[ASN][1000 genomes]
rs940898	0.86[JPT][hapmap]
rs9815710	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9819520	0.90[MEX][hapmap]
rs9824250	0.86[ASN][1000 genomes]
rs9824788	0.85[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs9840311	0.83[ASN][1000 genomes]
rs9844944	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9852801	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs9861470	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9879849	0.83[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	nsv933605	chr3:133425907-133680641	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv829729	chr3:133444871-133620387	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9813363	RYK	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133590600-133606600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:133592400-133605800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:133596400-133613600	Weak transcription	Gastric	stomach
4	chr3:133598800-133610400	Weak transcription	Fetal Brain Male	brain
5	chr3:133599600-133610600	Weak transcription	Pancreas	Pancrea
6	chr3:133599800-133606200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:133601000-133608200	Enhancers	Brain Anterior Caudate	brain
8	chr3:133601200-133612800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:133601400-133612800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:133601800-133607000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:133602400-133606200	Weak transcription	Brain Germinal Matrix	brain
12	chr3:133603000-133605400	Weak transcription	Right Ventricle	heart
13	chr3:133603200-133606200	Weak transcription	Fetal Brain Female	brain
14	chr3:133603200-133606200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:133603200-133606400	Weak transcription	Right Atrium	heart
16	chr3:133603200-133610800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr3:133603400-133605000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:133603600-133605000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr3:133603600-133606400	Weak transcription	Brain Substantia Nigra	brain
20	chr3:133603600-133606800	Weak transcription	K562	blood
21	chr3:133603800-133606000	Weak transcription	Left Ventricle	heart
22	chr3:133604200-133605000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:133604200-133605800	Enhancers	Brain Hippocampus Middle	brain
24	chr3:133604200-133608000	Enhancers	Brain Angular Gyrus	brain
25	chr3:133604400-133606000	Weak transcription	Spleen	Spleen
26	chr3:133604400-133608200	Enhancers	Cortex derived primary cultured neurospheres	brain

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