Variant report

Variant	rs10895987
Chromosome Location	chr11:64904908-64904909
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:64904729-64905098	HepG2	liver:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64902231..64906341-chr11:64907764..64913217,6	K562	blood:
2	chr11:64900106..64905064-chr11:64945207..64950571,10	K562	blood:
3	chr11:64897351..64905868-chr11:64946257..64954528,24	K562	blood:
4	chr11:64877522..64908330-chr11:64931619..64960265,171	MCF-7	breast:
5	chr11:64902242..64904997-chr11:64905693..64907711,2	K562	blood:
6	chr11:64899089..64905727-chr11:64934867..64942996,32	K562	blood:
7	chr11:64901585..64906315-chr11:65031461..65034896,4	K562	blood:

No data

Variant related genes	Relation type
SYVN1	TF binding region
ENSG00000254614	Chromatin interaction
ENSG00000014138	Chromatin interaction
ENSG00000014216	Chromatin interaction
ENSG00000204710	Chromatin interaction
ENSG00000249251	Chromatin interaction
ENSG00000255200	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10895989	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11227126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11227136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11556920	0.84[CHD][hapmap]
rs11604798	0.84[CHD][hapmap]
rs12280510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12289048	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12292693	0.89[ASW][hapmap];0.85[CEU][hapmap];0.82[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.90[TSI][hapmap];0.88[YRI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12365171	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35251366	0.84[CHD][hapmap]
rs566908	1.00[JPT][hapmap]
rs7113761	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7114094	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72932837	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9971407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][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	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs10895987	FADS1	cis	parietal	SCAN
rs10895987	FADS3	cis	cerebellum	SCAN
rs10895987	SPDYC	cis	parietal	SCAN
rs10895987	C11orf84	cis	cerebellum	SCAN
rs10895987	SNORD22	cis	parietal	SCAN
rs10895987	ALDH3B2	cis	parietal	SCAN
rs10895987	PITPNM1	cis	cerebellum	SCAN
rs10895987	SPDYC	cis	Whole Blood	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64903000-64907000	Weak transcription	Ovary	ovary
2	chr11:64903200-64905200	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr11:64903200-64905200	Enhancers	Lung	lung
4	chr11:64903200-64905200	Enhancers	Pancreas	Pancrea
5	chr11:64903200-64906000	Weak transcription	Brain Substantia Nigra	brain
6	chr11:64903400-64905000	Enhancers	Fetal Kidney	kidney
7	chr11:64903400-64905200	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr11:64903600-64905000	Enhancers	Colonic Mucosa	Colon
9	chr11:64903600-64905000	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr11:64903600-64905600	Weak transcription	Fetal Stomach	stomach
11	chr11:64903600-64906200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr11:64903600-64906200	Weak transcription	NHEK	skin
13	chr11:64903600-64907800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr11:64903600-64911800	Weak transcription	Spleen	Spleen
15	chr11:64903600-64917400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr11:64903800-64905000	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr11:64903800-64905200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr11:64903800-64906000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr11:64903800-64906400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr11:64903800-64907000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr11:64903800-64908400	Weak transcription	HepG2	liver
22	chr11:64904000-64906400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr11:64904000-64909400	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr11:64904200-64913400	Weak transcription	Primary B cells from cord blood	blood
25	chr11:64904400-64906600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr11:64904400-64906800	Weak transcription	Primary T cells from cord blood	blood
27	chr11:64904400-64908800	Weak transcription	Liver	Liver
28	chr11:64904400-64909400	Weak transcription	Primary B cells from peripheral blood	blood
29	chr11:64904600-64907800	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr11:64904800-64905000	Active TSS	Brain Cingulate Gyrus	brain

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