Variant report

Variant	rs35288685
Chromosome Location	chr11:121183145-121183146
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10892717	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10892720	0.94[CHB][hapmap];0.83[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12226297	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12786590	0.89[CHB][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2060008	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6589872	0.89[CHB][hapmap];0.80[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7102059	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7106203	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7930204	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs891441	0.94[CHB][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898424	chr11:121108865-121206354	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv898425	chr11:121115206-121215237	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv898426	chr11:121136604-121206354	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs35288685	OR8D4	cis	cerebellum	SCAN
rs35288685	TMEM25	cis	parietal	SCAN
rs35288685	SC5D	cis	Thyroid	GTEx
rs35288685	TMEM136	cis	parietal	SCAN

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:121165000-121189400	Weak transcription	Fetal Intestine Small	intestine
2	chr11:121171600-121189600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:121171800-121190200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr11:121176200-121190000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr11:121178000-121186600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:121178000-121190000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr11:121178200-121185600	Weak transcription	Lung	lung
8	chr11:121178200-121189800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr11:121178200-121189800	Weak transcription	Fetal Brain Male	brain
10	chr11:121178200-121190200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr11:121178200-121190200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr11:121178200-121196400	Weak transcription	Ovary	ovary
13	chr11:121178400-121189800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr11:121178400-121190000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr11:121178400-121192400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr11:121178600-121183800	Weak transcription	Left Ventricle	heart
17	chr11:121178600-121189400	Weak transcription	Fetal Intestine Large	intestine
18	chr11:121178600-121190200	Weak transcription	NHEK	skin
19	chr11:121178600-121192400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr11:121178600-121192800	Weak transcription	Right Ventricle	heart
21	chr11:121178800-121189800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr11:121178800-121190000	Weak transcription	Brain Germinal Matrix	brain
23	chr11:121178800-121190200	Weak transcription	Brain Anterior Caudate	brain
24	chr11:121178800-121192200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr11:121178800-121192200	Weak transcription	Brain Angular Gyrus	brain
26	chr11:121178800-121192200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr11:121178800-121194000	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr11:121179000-121192000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr11:121179400-121184200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr11:121179400-121185600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr11:121179600-121183600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr11:121179600-121184000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr11:121179800-121189600	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr11:121179800-121190200	Weak transcription	Colon Smooth Muscle	Colon
35	chr11:121180000-121183400	Weak transcription	NH-A	brain
36	chr11:121180000-121183800	Enhancers	Primary B cells from peripheral blood	blood
37	chr11:121180000-121184000	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr11:121180000-121184000	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr11:121180000-121185000	Weak transcription	NHDF-Ad	bronchial
40	chr11:121180000-121189600	Weak transcription	Duodenum Mucosa	Duodenum
41	chr11:121180000-121190200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr11:121180000-121190200	Weak transcription	Brain Hippocampus Middle	brain
43	chr11:121180000-121192600	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr11:121180000-121198200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr11:121180200-121183200	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr11:121180200-121188200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr11:121180200-121188800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr11:121180200-121190000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr11:121180200-121192400	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr11:121180200-121192400	Weak transcription	Primary T cells fromperipheralblood	blood

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