Variant report

Variant	rs534774326
Chromosome Location	chr5:37840402-37840403
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	MAX	chr5:37840306-37840860	HepG2	liver:	n/a	n/a
2	POLR2A	chr5:37840209-37841010	SK-N-MC	brain:	n/a	n/a
3	POLR2A	chr5:37839792-37840931	IMR90	lung:	n/a	n/a
4	E2F6	chr5:37840201-37840780	H1-hESC	embryonic stem cell:	n/a	chr5:37840472-37840482
5	CTBP2	chr5:37839040-37840731	H1-hESC	embryonic stem cell:	n/a	n/a
6	GTF2F1	chr5:37840357-37840505	H1-hESC	embryonic stem cell:	n/a	n/a
7	E2F6	chr5:37840250-37840872	H1-hESC	embryonic stem cell:	n/a	chr5:37840472-37840482
8	RAD21	chr5:37839833-37841082	IMR90	lung:	n/a	chr5:37840712-37840722 chr5:37840433-37840446
9	CTCF	chr5:37840389-37840629	H1-hESC	embryonic stem cell:	n/a	n/a
10	CTCF	chr5:37840380-37840530	HRPEpiC	eye:	n/a	n/a
11	RAD21	chr5:37840346-37840779	H1-hESC	embryonic stem cell:	n/a	chr5:37840712-37840722 chr5:37840433-37840446
12	MAX	chr5:37839743-37840858	A549	lung:	n/a	chr5:37840289-37840299
13	SIN3AK20	chr5:37840279-37840882	SK-N-SH	brain:	n/a	n/a
14	RAD21	chr5:37840401-37840642	HepG2	liver:	n/a	chr5:37840433-37840446
15	CTCF	chr5:37840330-37840854	IMR90	lung:	n/a	n/a
16	RAD21	chr5:37840263-37840796	H1-hESC	embryonic stem cell:	n/a	chr5:37840712-37840722 chr5:37840433-37840446
17	CTCF	chr5:37840380-37840530	RPTEC	kidney:	n/a	n/a
18	MAX	chr5:37840302-37840870	H1-hESC	embryonic stem cell:	n/a	n/a
19	MAZ	chr5:37840371-37840619	HepG2	liver:	n/a	n/a
20	CTCF	chr5:37840380-37840610	GM12874	blood:	n/a	n/a
21	ZNF263	chr5:37839746-37841001	HEK293-T-REx	kidney:	n/a	chr5:37840249-37840258
22	BHLHE40	chr5:37839864-37840661	HepG2	liver:	n/a	chr5:37839968-37839984 chr5:37839973-37839989 chr5:37839947-37839963
23	CTCF	chr5:37840400-37840550	HepG2	liver:	n/a	n/a
24	RAD21	chr5:37840346-37840718	HepG2	liver:	n/a	chr5:37840433-37840446
25	MAX	chr5:37839740-37840787	HepG2	liver:	n/a	chr5:37840289-37840299
26	CTCF	chr5:37840398-37840646	MCF-7	breast:	n/a	n/a
27	MAZ	chr5:37838894-37841199	IMR90	lung:	n/a	chr5:37839592-37839602 chr5:37840289-37840299 chr5:37839378-37839388 chr5:37839135-37839145
28	HA-E2F1	chr5:37839600-37840974	MCF-7	breast:	n/a	chr5:37839794-37839804 chr5:37840192-37840201 chr5:37839800-37839810 chr5:37839797-37839807 chr5:37839877-37839887 chr5:37840472-37840482
29	E2F6	chr5:37840340-37840824	A549	lung:	n/a	chr5:37840472-37840482
30	CHD2	chr5:37840379-37840789	H1-hESC	embryonic stem cell:	n/a	n/a
31	CTCF	chr5:37840371-37840759	NHEK	skin:	n/a	n/a
32	CTCF	chr5:37840380-37840530	HL-60	blood:	n/a	n/a
33	POLR2A	chr5:37839876-37841002	ProgFib	skin:	n/a	n/a
34	MAX	chr5:37840342-37841071	SK-N-SH	brain:	n/a	n/a
35	CTCF	chr5:37840400-37840551	GM13977	blood:	n/a	n/a
36	CTCF	chr5:37840340-37840490	HAc	cerebellar:	n/a	n/a
37	MAX	chr5:37839552-37840816	H1-hESC	embryonic stem cell:	n/a	chr5:37839592-37839602 chr5:37840289-37840299
38	TBP	chr5:37840384-37840661	H1-hESC	embryonic stem cell:	n/a	n/a
39	CTCF	chr5:37840400-37840749	ProgFib	skin:	n/a	n/a
40	E2F6	chr5:37840166-37840885	A549	lung:	n/a	chr5:37840192-37840201 chr5:37840472-37840482
41	TEAD4	chr5:37840194-37840629	H1-hESC	embryonic stem cell:	n/a	chr5:37840416-37840425
42	CTCF	chr5:37840380-37840530	HCPEpiC	choroid plexus:	n/a	n/a
43	POLR2A	chr5:37839943-37841081	U87	brain:	n/a	n/a
44	HDAC2	chr5:37840347-37840608	HepG2	liver:	n/a	n/a
45	CTCF	chr5:37840260-37840410	HA-sp	spinal cord:	n/a	n/a
46	MAX	chr5:37840396-37840793	HepG2	liver:	n/a	n/a
47	SIN3A	chr5:37840317-37840743	H1-hESC	embryonic stem cell:	n/a	chr5:37840427-37840440 chr5:37840520-37840531
48	POLR2A	chr5:37840277-37841019	SK-N-SH	brain:	n/a	n/a
49	CTCF	chr5:37840400-37840550	HEK293	kidney:	n/a	n/a
50	CTCF	chr5:37840379-37840617	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:37834038..37837439-chr5:37839505..37841588,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-WDR70-1	chr5:37839970-37840675	NONHSAT101070

Variant related genes	Relation type
GDNF	TF binding region
GDNF-AS1	TF binding region
ENSG00000168621	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949716	chr5:37179341-37967352	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
2	esv1844348	chr5:37835398-37840642	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1851519	chr5:37835398-37840642	Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv3406944	chr5:37838720-37841568	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1833785	chr5:37839618-37840621	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1838210	chr5:37839618-37840621	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv1839230	chr5:37839618-37840621	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv1840288	chr5:37839618-37840621	Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv597849	chr5:37839618-37840642	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	esv1848849	chr5:37839618-37841045	Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	esv1850800	chr5:37839618-37841045	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	esv13245	chr5:37839636-37840756	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	esv1821997	chr5:37839726-37841045	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv597852	chr5:37839885-37840407	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv597853	chr5:37839936-37840509	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv597854	chr5:37840054-37840642	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:37834200-37841000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr5:37834400-37840600	Bivalent Enhancer	Fetal Brain Male	brain
3	chr5:37834400-37841400	Bivalent/Poised TSS	Colonic Mucosa	Colon
4	chr5:37836200-37840600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
5	chr5:37836200-37840800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
6	chr5:37836200-37840800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
7	chr5:37836200-37840800	Active TSS	NHDF-Ad	bronchial
8	chr5:37836200-37841000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
9	chr5:37836200-37841000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:37836400-37840600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:37836400-37840600	Active TSS	HSMM	muscle
12	chr5:37836400-37840800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
13	chr5:37836400-37841200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
14	chr5:37836400-37841600	Active TSS	HSMMtube	muscle
15	chr5:37836600-37841000	Flanking Active TSS	HMEC	breast
16	chr5:37837000-37840600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
17	chr5:37837000-37840800	Active TSS	Osteobl	bone
18	chr5:37838000-37841200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
19	chr5:37838200-37841400	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
20	chr5:37838400-37840800	Active TSS	Rectal Smooth Muscle	rectum
21	chr5:37838400-37841000	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr5:37838600-37841000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr5:37838600-37841000	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
24	chr5:37839200-37840600	Bivalent/Poised TSS	Sigmoid Colon	Sigmoid Colon
25	chr5:37839200-37840800	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
26	chr5:37839200-37840800	Active TSS	Colon Smooth Muscle	Colon
27	chr5:37839200-37841000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr5:37839400-37840600	Bivalent/Poised TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr5:37839400-37840600	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr5:37839400-37840600	Active TSS	Fetal Kidney	kidney
31	chr5:37839400-37840800	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr5:37839400-37841000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr5:37839600-37840600	Active TSS	Brain Cingulate Gyrus	brain
34	chr5:37839600-37840600	Active TSS	Brain Inferior Temporal Lobe	brain
35	chr5:37839600-37840600	Bivalent/Poised TSS	Esophagus	oesophagus
36	chr5:37839600-37840600	Active TSS	NHEK	skin
37	chr5:37839600-37840800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:37839600-37840800	Active TSS	Brain Angular Gyrus	brain
39	chr5:37839600-37840800	Active TSS	Brain Substantia Nigra	brain
40	chr5:37839600-37840800	Bivalent/Poised TSS	Fetal Stomach	stomach
41	chr5:37839600-37840800	Bivalent/Poised TSS	A549	lung
42	chr5:37839800-37840600	Bivalent/Poised TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr5:37839800-37840600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr5:37839800-37840600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr5:37839800-37840600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr5:37839800-37840600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr5:37839800-37840600	Flanking Active TSS	Liver	Liver
48	chr5:37839800-37840600	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
49	chr5:37839800-37840600	Bivalent/Poised TSS	Fetal Muscle Leg	muscle
50	chr5:37839800-37840600	Bivalent/Poised TSS	Placenta	Placenta

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