Variant report

Variant	rs1675534
Chromosome Location	chr3:98301093-98301094
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:98300331..98302518-chr3:98312399..98314281,2	K562	blood:

Variant related genes	Relation type
ENSG00000080819	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1000003	0.85[CHB][hapmap]
rs1131857	0.85[CHB][hapmap];0.88[CHD][hapmap];0.82[ASN][1000 genomes]
rs1531377	0.85[CHB][hapmap]
rs1616167	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1675513	0.85[CHB][hapmap]
rs1729977	0.81[ASN][1000 genomes]
rs1729988	0.81[ASN][1000 genomes]
rs3796137	0.85[CHB][hapmap]
rs3796138	0.85[CHB][hapmap]
rs3796139	0.85[CHB][hapmap]
rs6440000	0.85[CHB][hapmap]
rs6440016	0.85[CHB][hapmap]
rs6440017	0.84[CHB][hapmap]
rs6440022	0.85[CHB][hapmap]
rs6790842	0.85[CHB][hapmap]
rs6803092	0.85[CHB][hapmap]
rs7611858	0.85[CHB][hapmap]
rs7630058	0.93[CHB][hapmap]
rs7641726	0.85[CHB][hapmap]
rs7653204	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528056	chr3:98101101-98317836	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv520503	chr3:98102801-98317836	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv834775	chr3:98170059-98367552	Enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	esv3390386	chr3:98174549-98579953	Genic enhancers Strong transcription Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv997484	chr3:98284283-98371420	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv1000357	chr3:98284283-98381473	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
8	nsv536661	chr3:98286588-98315764	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
9	nsv965420	chr3:98299862-98302622	Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98285000-98303400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:98286800-98304200	Weak transcription	Pancreas	Pancrea
3	chr3:98287200-98310200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:98287400-98310400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr3:98288200-98303400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:98290400-98307600	Weak transcription	Psoas Muscle	Psoas
7	chr3:98292400-98301600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:98292400-98307400	Weak transcription	Fetal Kidney	kidney
9	chr3:98292400-98307600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:98292400-98310400	Weak transcription	Small Intestine	intestine
11	chr3:98292400-98311000	Weak transcription	Fetal Brain Male	brain
12	chr3:98292600-98303000	Weak transcription	A549	lung
13	chr3:98292600-98310200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:98292800-98303600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:98293000-98303400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr3:98293000-98311800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr3:98293200-98310400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr3:98294400-98310400	Weak transcription	Colonic Mucosa	Colon
19	chr3:98294400-98311000	Weak transcription	Stomach Mucosa	stomach
20	chr3:98294600-98303400	Weak transcription	Fetal Intestine Small	intestine
21	chr3:98294600-98304400	Weak transcription	Right Ventricle	heart
22	chr3:98294600-98308200	Weak transcription	Colon Smooth Muscle	Colon
23	chr3:98294800-98302800	Weak transcription	Fetal Muscle Leg	muscle
24	chr3:98294800-98308200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr3:98294800-98311000	Weak transcription	Esophagus	oesophagus
26	chr3:98295000-98305800	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr3:98295000-98308000	Weak transcription	Brain Germinal Matrix	brain
28	chr3:98295200-98301200	Strong transcription	Fetal Intestine Large	intestine
29	chr3:98295200-98301400	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr3:98295200-98303400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr3:98295200-98308200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:98295400-98303600	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr3:98295400-98307200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr3:98295600-98301200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr3:98295600-98303600	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr3:98295600-98309800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr3:98295800-98301200	Strong transcription	Dnd41	blood
38	chr3:98296000-98301200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:98296000-98310200	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr3:98296200-98301600	Strong transcription	Primary monocytes fromperipheralblood	blood
41	chr3:98296200-98310400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:98296400-98302400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:98296400-98308600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr3:98296400-98310000	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr3:98296600-98302800	Strong transcription	GM12878-XiMat	blood
46	chr3:98296600-98311200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr3:98296800-98302600	Weak transcription	Aorta	Aorta
48	chr3:98296800-98303000	Weak transcription	Fetal Stomach	stomach
49	chr3:98296800-98309600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr3:98296800-98310800	Weak transcription	NHLF	lung

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