Variant report

Variant	rs3829096
Chromosome Location	chr9:72658903-72658904
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10511979	0.86[ASN][1000 genomes]
rs10868378	0.80[EUR][1000 genomes]
rs1112232	0.90[ASN][1000 genomes]
rs12002407	0.90[ASN][1000 genomes]
rs12003971	0.89[ASN][1000 genomes]
rs12685632	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12685937	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12685939	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12686383	0.89[ASN][1000 genomes]
rs12686668	0.90[ASN][1000 genomes]
rs1542769	0.80[EUR][1000 genomes]
rs17087686	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17523363	0.88[ASN][1000 genomes]
rs1927105	0.88[ASN][1000 genomes]
rs1927110	0.88[ASN][1000 genomes]
rs1986412	0.90[ASN][1000 genomes]
rs2001235	0.93[ASN][1000 genomes]
rs2296772	0.83[ASN][1000 genomes]
rs2296773	0.83[ASN][1000 genomes]
rs2309584	0.90[ASN][1000 genomes]
rs2975859	0.81[EUR][1000 genomes]
rs2975860	0.83[EUR][1000 genomes]
rs2975866	0.89[ASN][1000 genomes]
rs2975867	0.89[ASN][1000 genomes]
rs2975868	0.89[ASN][1000 genomes]
rs2975880	0.88[ASN][1000 genomes]
rs2975884	0.88[ASN][1000 genomes]
rs2975911	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2997668	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2997679	0.90[ASN][1000 genomes]
rs2997681	0.85[ASN][1000 genomes]
rs2997714	0.88[ASN][1000 genomes]
rs3015165	0.90[ASN][1000 genomes]
rs3015169	0.91[ASN][1000 genomes]
rs3015170	0.91[ASN][1000 genomes]
rs3015171	0.89[ASN][1000 genomes]
rs3015173	0.91[ASN][1000 genomes]
rs3015174	0.91[ASN][1000 genomes]
rs3015175	0.93[ASN][1000 genomes]
rs3015177	0.90[ASN][1000 genomes]
rs3015180	0.90[ASN][1000 genomes]
rs3015181	0.90[ASN][1000 genomes]
rs3015182	0.90[ASN][1000 genomes]
rs3015184	0.89[ASN][1000 genomes]
rs3015185	0.89[ASN][1000 genomes]
rs3015186	0.89[ASN][1000 genomes]
rs3015189	0.89[ASN][1000 genomes]
rs3015198	0.88[ASN][1000 genomes]
rs3015204	0.88[ASN][1000 genomes]
rs3015207	0.88[ASN][1000 genomes]
rs3015213	0.88[ASN][1000 genomes]
rs3015223	0.85[ASN][1000 genomes]
rs3015226	0.83[EUR][1000 genomes]
rs4289878	0.89[ASN][1000 genomes]
rs4413835	0.80[EUR][1000 genomes]
rs4445287	0.80[EUR][1000 genomes]
rs4460447	0.88[ASN][1000 genomes]
rs4495496	0.83[ASN][1000 genomes]
rs4744584	0.83[EUR][1000 genomes]
rs58085049	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58660710	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60433205	0.83[AMR][1000 genomes]
rs61416419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7023406	0.83[EUR][1000 genomes]
rs72709197	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72709200	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72710469	0.93[ASN][1000 genomes]
rs72710483	0.89[ASN][1000 genomes]
rs745852	0.88[ASN][1000 genomes]
rs867595	0.93[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	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72657800-72659000	Flanking Active TSS	HSMM	muscle
2	chr9:72657800-72660400	Flanking Active TSS	HMEC	breast
3	chr9:72658000-72659200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:72658000-72659200	Flanking Active TSS	NHEK	skin
5	chr9:72658000-72660000	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr9:72658000-72660200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr9:72658000-72661000	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
8	chr9:72658200-72659000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
9	chr9:72658200-72659000	Flanking Active TSS	NH-A	brain
10	chr9:72658200-72659000	Flanking Active TSS	NHLF	lung
11	chr9:72658200-72659200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr9:72658200-72659200	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
13	chr9:72658200-72659400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
14	chr9:72658200-72659400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr9:72658200-72659600	Bivalent Enhancer	Fetal Brain Male	brain
16	chr9:72658200-72659600	Active TSS	Fetal Kidney	kidney
17	chr9:72658200-72659800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
18	chr9:72658200-72659800	Active TSS	H9 Cell Line	embryonic stem cell
19	chr9:72658200-72659800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
20	chr9:72658200-72659800	Active TSS	Ovary	ovary
21	chr9:72658200-72660000	Bivalent/Poised TSS	Fetal Intestine Large	intestine
22	chr9:72658200-72660000	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
23	chr9:72658200-72660200	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr9:72658200-72660400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:72658200-72660400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr9:72658200-72660600	Active TSS	Right Atrium	heart
27	chr9:72658200-72661400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
28	chr9:72658200-72662600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr9:72658400-72659000	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:72658400-72659000	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr9:72658400-72659000	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
32	chr9:72658400-72659000	Flanking Active TSS	Brain Cingulate Gyrus	brain
33	chr9:72658400-72659000	Flanking Active TSS	Brain Hippocampus Middle	brain
34	chr9:72658400-72659000	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
35	chr9:72658400-72659200	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:72658400-72659200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
37	chr9:72658400-72659400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr9:72658400-72659400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:72658400-72659600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
40	chr9:72658400-72659800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr9:72658400-72659800	Active TSS	HUES48 Cell Line	embryonic stem cell
42	chr9:72658400-72659800	Active TSS	iPS-15b Cell Line	embryonic stem cell
43	chr9:72658400-72659800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
44	chr9:72658400-72659800	Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr9:72658400-72660000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr9:72658400-72660000	Bivalent/Poised TSS	Fetal Intestine Small	intestine
47	chr9:72658400-72660000	Active TSS	HSMMtube	muscle
48	chr9:72658400-72660200	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
49	chr9:72658400-72660200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
50	chr9:72658400-72660400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived

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