Variant report

Variant	rs3733233
Chromosome Location	chr4:76847151-76847152
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10518142	0.84[EUR][1000 genomes]
rs13105416	0.89[ASN][1000 genomes]
rs28759823	0.82[EUR][1000 genomes]
rs3733234	0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3733235	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4859567	0.89[ASN][1000 genomes]
rs4859568	0.88[ASN][1000 genomes]
rs4859569	0.89[ASN][1000 genomes]
rs56148877	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56300358	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58317633	0.84[EUR][1000 genomes]
rs6824911	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6841837	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71594936	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72651374	0.82[EUR][1000 genomes]
rs7670521	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs905958	0.84[EUR][1000 genomes]
rs9996608	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[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	esv3353539	chr4:76530136-76993859	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv529613	chr4:76654941-77081576	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1004627	chr4:76793910-76999584	Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Active 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	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3733233	CXCL10	Cis_1M	lymphoblastoid	RTeQTL
rs3733233	ASAHL	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:76832600-76859000	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr4:76833800-76851200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:76833800-76856400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr4:76833800-76860800	Weak transcription	Fetal Heart	heart
5	chr4:76834200-76851200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:76835000-76847200	Strong transcription	Primary B cells from peripheral blood	blood
7	chr4:76835000-76847400	Strong transcription	Primary T helper cells PMA-I stimulated	--
8	chr4:76835000-76859400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr4:76835000-76859600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr4:76835200-76859800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:76836800-76847400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr4:76837000-76851400	Weak transcription	Fetal Thymus	thymus
13	chr4:76837000-76857200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr4:76837000-76860200	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr4:76837200-76860800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr4:76837200-76860800	Weak transcription	HSMM	muscle
17	chr4:76837600-76851400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr4:76837600-76858400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr4:76837600-76859200	Weak transcription	Brain Hippocampus Middle	brain
20	chr4:76837600-76860800	Weak transcription	Fetal Kidney	kidney
21	chr4:76837800-76860800	Weak transcription	Colon Smooth Muscle	Colon
22	chr4:76837800-76860800	Weak transcription	NH-A	brain
23	chr4:76838000-76857600	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr4:76838200-76847200	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr4:76838200-76852600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:76838600-76851800	Weak transcription	Brain Cingulate Gyrus	brain
27	chr4:76838600-76860800	Weak transcription	NHLF	lung
28	chr4:76839000-76860400	Weak transcription	HUVEC	blood vessel
29	chr4:76839400-76860800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr4:76839600-76859200	Weak transcription	Brain Substantia Nigra	brain
31	chr4:76839800-76860800	Weak transcription	Psoas Muscle	Psoas
32	chr4:76839800-76860800	Weak transcription	HMEC	breast
33	chr4:76841000-76847200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr4:76841400-76851400	Weak transcription	Hela-S3	cervix
35	chr4:76841800-76851400	Weak transcription	Ovary	ovary
36	chr4:76841800-76857400	Weak transcription	Osteobl	bone
37	chr4:76841800-76860800	Weak transcription	Brain Germinal Matrix	brain
38	chr4:76842000-76855800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr4:76842000-76857400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr4:76842000-76860400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr4:76842400-76851800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr4:76842400-76860800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr4:76842600-76851400	Weak transcription	NHDF-Ad	bronchial
44	chr4:76842600-76860800	Weak transcription	Pancreas	Pancrea
45	chr4:76842800-76851600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr4:76843000-76849000	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr4:76843000-76850400	Weak transcription	Brain Anterior Caudate	brain
48	chr4:76843000-76850800	Weak transcription	Colonic Mucosa	Colon
49	chr4:76843000-76851000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr4:76843000-76851200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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