Variant report

Variant	rs572008724
Chromosome Location	chr1:228194512-228194513
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:228194476-228194526	SK-N-MC	brain:	n/a
2	chr1:228194476-228194526	HCPEpiC	choroid plexus:	n/a
3	chr1:228194476-228194526	AG04450	lung:	fetal
4	chr1:228194476-228194526	HCF	heart:	n/a
5	chr1:228194476-228194526	CMK	blood:	n/a
6	chr1:228194476-228194526	Hepatocyte	liver:	n/a
7	chr1:228194476-228194526	SKMC	muscle:	n/a
8	chr1:228194476-228194526	HPAEpiC	pulmonary alveolar:	n/a
9	chr1:228194476-228194526	BE2_C	brain:	n/a
10	chr1:228194476-228194526	SK-N-SH_RA	brain:	n/a
11	chr1:228194476-228194526	PrEC	prostate:	n/a
12	chr1:228194476-228194526	HCM	heart:	n/a
13	chr1:228194476-228194526	RPTEC	kidney:	n/a
14	chr1:228194476-228194526	NB4	blood:	n/a
15	chr1:228194476-228194526	HL-60	blood:	n/a
16	chr1:228194476-228194526	AG09309	skin:	n/a
17	chr1:228194476-228194526	U87	brain:	n/a
18	chr1:228194476-228194526	HEEpiC	esophagus:	n/a
19	chr1:228194476-228194526	HMEC	breast:	n/a
20	chr1:228194476-228194526	HRPEpiC	eye:	n/a
21	chr1:228194476-228194526	MCF10A-Er-Src	breast:	n/a
22	chr1:228194476-228194526	ECC-1	luminal epithelium:	n/a
23	chr1:228194476-228194526	HEK293	kidney:	embryo
24	chr1:228194476-228194526	GM12878	blood:	n/a
25	chr1:228194476-228194526	HepG2	liver:	n/a
26	chr1:228194476-228194526	ovcar-3	ovarian:	n/a
27	chr1:228194476-228194526	T-47D	breast:	n/a
28	chr1:228194476-228194526	PFSK-1	brain:	n/a
29	chr1:228194476-228194526	NH-A	brain:	n/a
30	chr1:228194476-228194526	HAEpiC	amniotic membrane:	n/a
31	chr1:228194476-228194526	PANC-1	pancreas:	n/a
32	chr1:228194476-228194526	BJ	skin:	n/a
33	chr1:228194476-228194526	SAEC	small airway:	n/a
34	chr1:228194476-228194526	AoSMC	blood vessel:	n/a
35	chr1:228194476-228194526	HNPCEpiC	eye:	n/a
36	chr1:228194476-228194526	NT2-D1	testis:	n/a
37	chr1:228194476-228194526	SK-N-SH	brain:	n/a
38	chr1:228194476-228194526	NHDF-neo	bronchial:	n/a
39	chr1:228194476-228194526	LNCaP	prostate:	n/a
40	chr1:228194476-228194526	HCT-116	colon:	n/a
41	chr1:228194476-228194526	GM12892	blood:	n/a
42	chr1:228194476-228194526	ProgFib	skin:	n/a
43	chr1:228194476-228194526	AG10803	skin:	n/a
44	chr1:228194476-228194526	Jurkat	blood:	n/a
45	chr1:228194476-228194526	IMR90	lung:	fetal
46	chr1:228194476-228194526	AG04449	skin:	fetal
47	chr1:228194476-228194526	MCF-7	breast:	n/a
48	chr1:228194476-228194526	GM06990	blood:	n/a
49	chr1:228194476-228194526	HRE	kidney:	n/a
50	chr1:228194476-228194526	H1-hESC	embryonic stem cell:	embryo

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:228193720..228196616-chr1:228296879..228298469,2	MCF-7	breast:
2	chr1:228192379..228197446-chr1:228268248..228273367,9	MCF-7	breast:

No data

Variant related genes	Relation type
WNT3A	CpG island
ENSG00000143761	Chromatin interaction
ENSG00000162910	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv32853	chr1:227880116-228806209	Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	nsv427952	chr1:227881664-228308629	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv826908	chr1:227895386-228691100	Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
5	nsv516409	chr1:228035131-228296745	Enhancers Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv523935	chr1:228038124-228681749	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
7	nsv947387	chr1:228140028-228206630	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv832803	chr1:228155118-228313681	Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv873252	chr1:228174528-228371551	Strong transcription Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
10	nsv945349	chr1:228186556-228245135	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv826953	chr1:228191929-228196867	Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
12	esv3345664	chr1:228193354-228196202	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
13	esv3391367	chr1:228193679-228195777	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:228192000-228194600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
2	chr1:228192000-228194600	Bivalent Enhancer	Fetal Stomach	stomach
3	chr1:228192200-228196800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
4	chr1:228192400-228195200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
5	chr1:228192800-228194800	Bivalent Enhancer	Placenta	Placenta
6	chr1:228193400-228196600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
7	chr1:228193600-228195000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
8	chr1:228193600-228196200	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
9	chr1:228193800-228195200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
10	chr1:228193800-228195200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
11	chr1:228193800-228195600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
12	chr1:228193800-228196800	Enhancers	Primary B cells from cord blood	blood
13	chr1:228194000-228194600	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr1:228194000-228194800	Enhancers	Pancreas	Pancrea
15	chr1:228194000-228195000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr1:228194000-228195000	Bivalent Enhancer	Spleen	Spleen
17	chr1:228194000-228196000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
18	chr1:228194000-228196000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
19	chr1:228194000-228196600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
20	chr1:228194200-228194800	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:228194200-228194800	Active TSS	Breast Myoepithelial Primary Cells	Breast
22	chr1:228194200-228194800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:228194200-228194800	Bivalent/Poised TSS	Psoas Muscle	Psoas
24	chr1:228194200-228194800	Bivalent Enhancer	HMEC	breast
25	chr1:228194200-228194800	Bivalent/Poised TSS	NHEK	skin
26	chr1:228194200-228195000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
27	chr1:228194200-228195000	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr1:228194200-228195000	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
29	chr1:228194200-228195000	Bivalent Enhancer	Lung	lung
30	chr1:228194200-228195400	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
31	chr1:228194200-228195600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
32	chr1:228194200-228195600	Enhancers	Liver	Liver
33	chr1:228194200-228196600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
34	chr1:228194200-228197400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr1:228194400-228194600	Bivalent/Poised TSS	Colonic Mucosa	Colon
36	chr1:228194400-228194600	Bivalent Enhancer	Fetal Brain Male	brain
37	chr1:228194400-228194800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr1:228194400-228194800	Bivalent/Poised TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr1:228194400-228194800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr1:228194400-228194800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr1:228194400-228194800	Bivalent/Poised TSS	Cortex derived primary cultured neurospheres	brain
42	chr1:228194400-228194800	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr1:228194400-228194800	Bivalent/Poised TSS	Esophagus	oesophagus
44	chr1:228194400-228195000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr1:228194400-228195000	Active TSS	Right Atrium	heart
46	chr1:228194400-228195000	Bivalent/Poised TSS	Right Ventricle	heart
47	chr1:228194400-228195000	Bivalent/Poised TSS	HSMM	muscle
48	chr1:228194400-228195200	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
49	chr1:228194400-228195200	Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr1:228194400-228195800	Enhancers	Primary hematopoietic stem cells	blood

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