Variant report

Variant	rs9294132
Chromosome Location	chr6:79932677-79932678
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10806164	0.93[EUR][1000 genomes]
rs11752249	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs12191359	0.93[EUR][1000 genomes]
rs12211094	0.93[EUR][1000 genomes]
rs2050436	0.93[EUR][1000 genomes]
rs28360567	0.93[EUR][1000 genomes]
rs28360568	0.93[EUR][1000 genomes]
rs34043789	0.96[EUR][1000 genomes]
rs35711640	0.93[EUR][1000 genomes]
rs4706085	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4706757	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66732383	0.93[EUR][1000 genomes]
rs6930131	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750289	0.93[EUR][1000 genomes]
rs7766859	0.93[EUR][1000 genomes]
rs9294133	0.89[CEU][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9294134	1.00[CEU][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9343882	0.93[EUR][1000 genomes]
rs9361502	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9448657	0.89[CEU][hapmap];0.96[EUR][1000 genomes]
rs989191	1.00[CEU][hapmap];0.99[EUR][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	nsv830706	chr6:79825910-79994878	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9294132	HMGN3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79906800-79935600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:79907400-79942800	Weak transcription	HSMM	muscle
3	chr6:79907600-79940800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr6:79908400-79938600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:79910800-79935600	Weak transcription	NHEK	skin
6	chr6:79912400-79940600	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr6:79912800-79942600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:79913200-79943000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr6:79913200-79943200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:79916400-79935400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:79916400-79943200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr6:79916600-79933000	Weak transcription	Spleen	Spleen
13	chr6:79917800-79941000	Weak transcription	Hela-S3	cervix
14	chr6:79918200-79942000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr6:79920200-79933400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr6:79920400-79940600	Weak transcription	Dnd41	blood
17	chr6:79920400-79943000	Weak transcription	Fetal Muscle Trunk	muscle
18	chr6:79920800-79939200	Weak transcription	Fetal Thymus	thymus
19	chr6:79921600-79933000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:79925000-79933600	Weak transcription	Primary B cells from cord blood	blood
21	chr6:79925000-79935400	Weak transcription	Fetal Kidney	kidney
22	chr6:79925200-79939600	Weak transcription	Fetal Brain Male	brain
23	chr6:79925400-79933000	Weak transcription	Fetal Intestine Large	intestine
24	chr6:79925400-79933200	Weak transcription	Pancreas	Pancrea
25	chr6:79925400-79933400	Weak transcription	HepG2	liver
26	chr6:79925400-79936000	Weak transcription	Fetal Muscle Leg	muscle
27	chr6:79925400-79939600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:79925400-79940000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr6:79925400-79940600	Weak transcription	Placenta	Placenta
30	chr6:79925400-79942600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr6:79925800-79934200	Weak transcription	Fetal Lung	lung
32	chr6:79925800-79940600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr6:79925800-79941800	Weak transcription	Brain Angular Gyrus	brain
34	chr6:79925800-79942000	Weak transcription	Adipose Nuclei	Adipose
35	chr6:79925800-79942000	Weak transcription	Brain Anterior Caudate	brain
36	chr6:79925800-79942800	Weak transcription	Liver	Liver
37	chr6:79926600-79933400	Weak transcription	Fetal Intestine Small	intestine
38	chr6:79926600-79935400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:79926600-79942000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr6:79927200-79939800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:79927400-79942600	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr6:79927600-79936000	Weak transcription	Fetal Heart	heart
43	chr6:79927600-79940800	Weak transcription	Brain Hippocampus Middle	brain
44	chr6:79927800-79935200	Weak transcription	Colon Smooth Muscle	Colon
45	chr6:79927800-79935400	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr6:79927800-79940800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:79927800-79942000	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr6:79927800-79942800	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr6:79927800-79942800	Weak transcription	Primary T cells from cord blood	blood
50	chr6:79928000-79942000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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