Variant report

Variant	rs7106914
Chromosome Location	chr11:9977971-9977972
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10500715	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10500717	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap]
rs10743123	0.95[ASN][1000 genomes]
rs10770077	0.99[ASN][1000 genomes]
rs10770078	0.97[ASN][1000 genomes]
rs10770079	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10840330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[ASN][1000 genomes]
rs10840333	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10840334	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.99[ASN][1000 genomes]
rs10840347	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs10840348	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs10840361	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10840362	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10840370	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs11042556	0.81[EUR][1000 genomes]
rs11042558	0.90[ASN][1000 genomes]
rs11042574	0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11042589	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs11042590	0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs11042591	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs11042604	0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs11042605	0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs11042613	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs11042624	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs11042639	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs11042645	1.00[JPT][hapmap]
rs12222953	0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12283105	1.00[JPT][hapmap]
rs12290996	0.97[ASN][1000 genomes]
rs12575719	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1372807	0.87[CHB][hapmap];0.88[JPT][hapmap]
rs1442732	0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs16907368	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs16907396	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs2403226	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2403227	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2403229	0.93[CHB][hapmap];0.96[CHD][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs4576815	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4625455	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs4909917	0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.98[ASN][1000 genomes]
rs4910084	0.89[CEU][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs4910086	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.97[ASN][1000 genomes]
rs4910087	0.91[EUR][1000 genomes]
rs58084362	0.88[ASN][1000 genomes]
rs60362241	0.88[ASN][1000 genomes]
rs61877007	0.88[EUR][1000 genomes]
rs7114044	0.99[ASN][1000 genomes]
rs7114303	0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs7933475	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7938788	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs7946995	0.92[CHB][hapmap];0.93[JPT][hapmap]
rs7951950	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	esv1819684	chr11:9973062-10012511	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7106914	OR10A5	cis	cerebellum	SCAN
rs7106914	LYVE1	cis	parietal	SCAN
rs7106914	OVCH2	cis	cerebellum	SCAN
rs7106914	OR52B2	cis	parietal	SCAN
rs7106914	CYB5R2	cis	parietal	SCAN
rs7106914	SYT9	cis	cerebellum	SCAN

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
2	chr11:9943400-9980600	Weak transcription	Primary T cells from cord blood	blood
3	chr11:9950200-9980400	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr11:9952800-9980200	Weak transcription	Aorta	Aorta
5	chr11:9952800-9980400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr11:9952800-9980600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:9952800-9980600	Weak transcription	Spleen	Spleen
8	chr11:9952800-9995200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr11:9953000-9978200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr11:9953000-9979600	Weak transcription	Fetal Stomach	stomach
11	chr11:9953000-9980200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr11:9953000-9980200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:9953000-9980400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr11:9953000-9980400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr11:9953000-9980400	Weak transcription	Esophagus	oesophagus
16	chr11:9958800-9978200	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr11:9964400-9980200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr11:9964800-9980400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr11:9965200-9981000	Weak transcription	HUVEC	blood vessel
20	chr11:9965400-9980200	Weak transcription	Liver	Liver
21	chr11:9966000-9980200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr11:9966000-9980200	Weak transcription	NHLF	lung
23	chr11:9966200-9980200	Weak transcription	Osteobl	bone
24	chr11:9967600-9980200	Weak transcription	Fetal Intestine Large	intestine
25	chr11:9967600-9980400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr11:9967800-9980200	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr11:9967800-9980200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr11:9967800-9980200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr11:9967800-9980400	Weak transcription	Primary hematopoietic stem cells	blood
30	chr11:9968000-9979600	Weak transcription	Fetal Muscle Leg	muscle
31	chr11:9968000-9980200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr11:9968000-9980400	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr11:9968000-9980400	Weak transcription	Dnd41	blood
34	chr11:9968000-9984000	Weak transcription	Primary B cells from cord blood	blood
35	chr11:9968000-9984200	Weak transcription	Fetal Kidney	kidney
36	chr11:9968200-9980200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr11:9968200-9980200	Weak transcription	Rectal Smooth Muscle	rectum
38	chr11:9968200-9980400	Weak transcription	Brain Angular Gyrus	brain
39	chr11:9968400-9980400	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr11:9968600-9980200	Weak transcription	Fetal Brain Female	brain
41	chr11:9969200-9980400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr11:9969400-9980200	Weak transcription	Ovary	ovary
43	chr11:9969400-9980400	Weak transcription	Brain Substantia Nigra	brain
44	chr11:9969800-9979600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr11:9970800-9980200	Weak transcription	Right Ventricle	heart
46	chr11:9972400-9980200	Weak transcription	Fetal Intestine Small	intestine
47	chr11:9972400-9980200	Weak transcription	Placenta	Placenta
48	chr11:9972800-9980600	Weak transcription	Gastric	stomach
49	chr11:9973000-9986000	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr11:9973200-9980400	Weak transcription	HepG2	liver

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