Variant report

Variant	rs35098355
Chromosome Location	chr3:98618598-98618599
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:98618321-98620638	SK-N-SH	brain:	n/a	n/a
2	MYC	chr3:98618500-98619417	MCF10A-Er-Src	breast:	n/a	n/a
3	BCL3	chr3:98618365-98619205	A549	lung:	n/a	n/a
4	FOS	chr3:98618578-98618824	MCF10A-Er-Src	breast:	n/a	n/a
5	MAX	chr3:98618295-98619513	A549	lung:	n/a	n/a
6	POLR2A	chr3:98618470-98618805	SK-N-SH	brain:	n/a	n/a
7	POLR2A	chr3:98618257-98622361	U87	brain:	n/a	n/a
8	POLR2A	chr3:98618207-98618796	HCT-116	colon:	n/a	n/a
9	POLR2A	chr3:98618299-98622361	U87	brain:	n/a	n/a
10	POLR2A	chr3:98618341-98621471	ProgFib	skin:	n/a	n/a
11	POLR2A	chr3:98618148-98622423	U87	brain:	n/a	n/a
12	SIN3AK20	chr3:98618244-98618723	A549	lung:	n/a	n/a
13	REST	chr3:98618368-98619272	A549	lung:	n/a	n/a
14	TAF1	chr3:98617981-98618799	A549	lung:	n/a	n/a
15	SIN3AK20	chr3:98618345-98619139	A549	lung:	n/a	n/a
16	POLR2A	chr3:98618120-98622417	U87	brain:	n/a	n/a
17	POLR2A	chr3:98618477-98619014	A549	lung:	n/a	n/a
18	CHD1	chr3:98618292-98622396	IMR90	lung:	n/a	chr3:98620361-98620371
19	TCF12	chr3:98618229-98622320	A549	lung:	n/a	n/a
20	POLR2A	chr3:98615281-98622405	HCT-116	colon:	n/a	n/a

Variant related genes	Relation type
DCBLD2	TF binding region
ENSG00000239462	TF binding region

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10428160	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10589669	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11552978	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12107272	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12108018	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12108142	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13059624	0.87[EUR][1000 genomes]
rs13065136	0.98[EUR][1000 genomes]
rs13068317	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13072410	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13074614	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13074787	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13076960	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13078549	0.93[EUR][1000 genomes]
rs13079960	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13080057	0.87[EUR][1000 genomes]
rs13081992	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13083238	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13083613	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13083934	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13084692	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13087627	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13087631	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13088532	0.89[EUR][1000 genomes]
rs13091170	0.98[EUR][1000 genomes]
rs13091236	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13091956	0.82[EUR][1000 genomes]
rs13093128	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13096085	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13097876	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13100915	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13100937	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1983009	0.84[EUR][1000 genomes]
rs2439232	0.91[EUR][1000 genomes]
rs2454687	0.89[EUR][1000 genomes]
rs34008360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34269725	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34279227	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34284740	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34394867	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34428696	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34458031	0.91[AMR][1000 genomes]
rs34470469	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34479374	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34489202	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34688367	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34711372	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34725039	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34791359	0.91[AMR][1000 genomes]
rs34826460	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34848749	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34860591	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35006699	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35025156	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35076733	0.93[EUR][1000 genomes]
rs35103318	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35219252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35234681	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35239055	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35312318	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35366262	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35422064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35499232	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35514544	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35526367	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35539438	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35592768	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35764973	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35854439	0.82[EUR][1000 genomes]
rs35894621	0.91[AMR][1000 genomes]
rs35914268	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35947493	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35947806	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36028944	0.82[AMR][1000 genomes]
rs36032715	0.87[EUR][1000 genomes]
rs36098932	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs36157152	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs36160001	0.84[EUR][1000 genomes]
rs36175276	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs41267851	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55644421	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56083233	0.98[EUR][1000 genomes]
rs56094988	0.82[EUR][1000 genomes]
rs56246599	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56408882	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6764579	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6805362	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71124004	0.83[EUR][1000 genomes]
rs71311393	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71311394	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71311397	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71311398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71311402	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313504	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313506	0.91[EUR][1000 genomes]
rs71313508	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313509	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313510	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313511	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313512	0.91[AMR][1000 genomes]
rs7614053	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv877214	chr3:98445324-98738006	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98593800-98619400	Weak transcription	Small Intestine	intestine
2	chr3:98597400-98619000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr3:98605000-98618600	Weak transcription	Fetal Stomach	stomach
4	chr3:98610800-98618600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr3:98611400-98618800	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr3:98611400-98619200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:98611800-98618600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr3:98612000-98618800	Weak transcription	Psoas Muscle	Psoas
9	chr3:98613000-98618600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:98613000-98618600	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:98613000-98618600	Weak transcription	HSMMtube	muscle
12	chr3:98613200-98618600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:98613200-98618800	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:98613200-98619200	Weak transcription	Aorta	Aorta
15	chr3:98613200-98619400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr3:98613600-98619400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr3:98614200-98619600	Weak transcription	Gastric	stomach
18	chr3:98614400-98618600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:98614400-98619000	Weak transcription	K562	blood
20	chr3:98615000-98619400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr3:98615000-98620400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr3:98615200-98618600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr3:98615600-98619600	Flanking Active TSS	HUVEC	blood vessel
24	chr3:98615600-98621200	Active TSS	NHLF	lung
25	chr3:98616000-98618600	Active TSS	HMEC	breast
26	chr3:98616600-98618600	Enhancers	Dnd41	blood
27	chr3:98616600-98618800	Active TSS	Muscle Satellite Cultured Cells	--
28	chr3:98616600-98621400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr3:98616800-98621200	Active TSS	NHDF-Ad	bronchial
30	chr3:98617400-98618600	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr3:98617400-98618600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:98617400-98621200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:98617400-98622000	Active TSS	Right Ventricle	heart
34	chr3:98617600-98618600	Enhancers	Adipose Nuclei	Adipose
35	chr3:98617600-98621200	Active TSS	HUES64 Cell Line	embryonic stem cell
36	chr3:98618000-98618600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr3:98618000-98618600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr3:98618000-98618600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:98618000-98619000	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr3:98618200-98618800	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:98618200-98618800	Enhancers	Fetal Lung	lung
42	chr3:98618200-98619000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr3:98618200-98619000	Enhancers	Rectal Smooth Muscle	rectum
44	chr3:98618200-98619400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr3:98618200-98619400	Enhancers	Fetal Brain Male	brain
46	chr3:98618200-98619600	Transcr. at gene 5' and 3'	Osteobl	bone
47	chr3:98618200-98621800	Active TSS	ES-I3 Cell Line	embryonic stem cell
48	chr3:98618400-98618600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr3:98618400-98618600	Active TSS	HUES48 Cell Line	embryonic stem cell
50	chr3:98618400-98618600	Active TSS	HUES6 Cell Line	embryonic stem cell

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