Variant report

Variant	rs35588936
Chromosome Location	chr1:155950963-155950964
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:12)
CpG islands
(count:61)
Chromatin interactive
region (count:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:12 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr1:155950759-155951419	K562	blood:	n/a	n/a
2	MAZ	chr1:155950941-155951319	GM12878	blood:	n/a	n/a
3	POLR2A	chr1:155950858-155951651	Raji	blood:	n/a	n/a
4	POLR2A	chr1:155950718-155951274	HCT-116	colon:	n/a	n/a
5	POLR2A	chr1:155950663-155950992	K562	blood:	n/a	n/a
6	MXI1	chr1:155950716-155951230	GM12878	blood:	n/a	n/a
7	POLR2A	chr1:155943832-155953868	U87	brain:	n/a	n/a
8	POLR2A	chr1:155943838-155953803	U87	brain:	n/a	n/a
9	RCOR1	chr1:155950602-155951968	IMR90	lung:	n/a	n/a
10	MTA3	chr1:155943968-155951505	GM12878	blood:	n/a	n/a
11	TEAD4	chr1:155950630-155951444	K562	blood:	n/a	n/a
12	POLR2A	chr1:155950620-155953675	U87	brain:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:155950963-155951013	Hela-S3	cervix:	n/a
2	chr1:155950963-155951013	ECC-1	luminal epithelium:	n/a
3	chr1:155950963-155951013	IMR90	lung:	fetal
4	chr1:155950963-155951013	HEEpiC	esophagus:	n/a
5	chr1:155950963-155951013	A549	lung:	n/a
6	chr1:155950963-155951013	HCT-116	colon:	n/a
7	chr1:155950963-155951013	GM12891	blood:	n/a
8	chr1:155950963-155951013	ProgFib	skin:	n/a
9	chr1:155950963-155951013	HRCEpiC	kidney:	n/a
10	chr1:155950963-155951013	HNPCEpiC	eye:	n/a
11	chr1:155950963-155951013	LNCaP	prostate:	n/a
12	chr1:155950963-155951013	PANC-1	pancreas:	n/a
13	chr1:155950963-155951013	GM12878	blood:	n/a
14	chr1:155950963-155951013	ovcar-3	ovarian:	n/a
15	chr1:155950963-155951013	BJ	skin:	n/a
16	chr1:155950963-155951013	NH-A	brain:	n/a
17	chr1:155950963-155951013	SK-N-SH_RA	brain:	n/a
18	chr1:155950963-155951013	CMK	blood:	n/a
19	chr1:155950963-155951013	AG09309	skin:	n/a
20	chr1:155950963-155951013	GM12892	blood:	n/a
21	chr1:155950963-155951013	HCF	heart:	n/a
22	chr1:155950963-155951013	HRPEpiC	eye:	n/a
23	chr1:155950963-155951013	HCPEpiC	choroid plexus:	n/a
24	chr1:155950963-155951013	HUVEC	blood vessel:	n/a
25	chr1:155950963-155951013	SKMC	muscle:	n/a
26	chr1:155950963-155951013	MCF10A-Er-Src	breast:	n/a
27	chr1:155950963-155951013	HAEpiC	amniotic membrane:	n/a
28	chr1:155950963-155951013	AoSMC	blood vessel:	n/a
29	chr1:155950963-155951013	HEK293	kidney:	embryo
30	chr1:155950963-155951013	GM06990	blood:	n/a
31	chr1:155950963-155951013	AG10803	skin:	n/a
32	chr1:155950963-155951013	HRE	kidney:	n/a
33	chr1:155950963-155951013	NB4	blood:	n/a
34	chr1:155950963-155951013	RPTEC	kidney:	n/a
35	chr1:155950963-155951013	T-47D	breast:	n/a
36	chr1:155950963-155951013	Hepatocyte	liver:	n/a
37	chr1:155950963-155951013	HepG2	liver:	n/a
38	chr1:155950963-155951013	U87	brain:	n/a
39	chr1:155950963-155951013	HMEC	breast:	n/a
40	chr1:155950963-155951013	HPAEpiC	pulmonary alveolar:	n/a
41	chr1:155950963-155951013	NHBE	bronchial:	n/a
42	chr1:155950963-155951013	MCF-7	breast:	n/a
43	chr1:155950963-155951013	K562	blood:	n/a
44	chr1:155950963-155951013	H1-hESC	embryonic stem cell:	embryo
45	chr1:155950963-155951013	HIPEpiC	eye:	n/a
46	chr1:155950963-155951013	Jurkat	blood:	n/a
47	chr1:155950963-155951013	SK-N-SH	brain:	n/a
48	chr1:155950963-155951013	PFSK-1	brain:	n/a
49	chr1:155950963-155951013	NHDF-neo	bronchial:	n/a
50	chr1:155950963-155951013	PrEC	prostate:	n/a

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:155949796..155952552-chr1:155965879..155967934,2	K562	blood:
2	chr1:155928147..155930680-chr1:155950511..155952920,2	K562	blood:
3	chr1:155948977..155951151-chr1:156030667..156033085,2	MCF-7	breast:
4	chr1:155950120..155952979-chr1:155958659..155960615,3	MCF-7	breast:
5	chr1:155943579..155945946-chr1:155950039..155953037,2	MCF-7	breast:
6	chr1:155949794..155952659-chr1:155990728..155992643,2	K562	blood:
7	chr1:155931521..155933487-chr1:155948963..155950972,2	MCF-7	breast:
8	chr1:155949831..155952126-chr1:156022990..156025068,2	K562	blood:
9	chr1:155907837..155914260-chr1:155947632..155952579,11	MCF-7	breast:
10	chr1:155902760..155905677-chr1:155945999..155951456,7	K562	blood:
11	chr1:155903867..155905508-chr1:155950424..155952839,2	MCF-7	breast:
12	chr1:155950273..155951784-chr1:155982062..155983616,2	K562	blood:
13	chr1:155950118..155953012-chr1:155973513..155975361,2	K562	blood:
14	chr1:155906141..155908097-chr1:155950003..155952687,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RXFP4-2	chr1:155950658-155952777	ENSG00000273002.1

No data

Variant related genes	Relation type
ARHGEF2	TF binding region
ARHGEF2	CpG island
ENSG00000116586	Chromatin interaction
ENSG00000173080	Chromatin interaction
ENSG00000116584	Chromatin interaction
ENSG00000163479	Chromatin interaction
ENSG00000132680	Chromatin interaction
ENSG00000132698	Chromatin interaction
ENSG00000160803	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1010033	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs1018730	0.89[CEU][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes]
rs1055184	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs10908485	0.85[EUR][1000 genomes]
rs11264421	0.80[EUR][1000 genomes]
rs12039053	0.85[EUR][1000 genomes]
rs12138833	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs12747344	0.89[CEU][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.86[EUR][1000 genomes]
rs1544119	0.89[CEU][hapmap];0.94[TSI][hapmap]
rs1749409	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs1765275	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1964951	0.89[EUR][1000 genomes]
rs2275079	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs2275081	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs2364402	0.85[EUR][1000 genomes]
rs2364404	0.89[CEU][hapmap];0.94[TSI][hapmap];0.85[EUR][1000 genomes]
rs28379575	0.84[EUR][1000 genomes]
rs2886069	0.85[EUR][1000 genomes]
rs34802187	0.86[EUR][1000 genomes]
rs35138477	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35374730	0.84[EUR][1000 genomes]
rs35730001	0.89[EUR][1000 genomes]
rs3768280	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs4412586	0.84[EUR][1000 genomes]
rs4661160	0.85[EUR][1000 genomes]
rs4661162	0.89[CEU][hapmap];0.94[TSI][hapmap];0.85[EUR][1000 genomes]
rs4661170	0.84[EUR][1000 genomes]
rs4661172	0.89[CEU][hapmap];0.94[TSI][hapmap];0.85[EUR][1000 genomes]
rs493446	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs506688	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs527113	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs536870	0.84[EUR][1000 genomes]
rs572609	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs605025	0.89[CEU][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs6660802	0.89[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs6667096	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs708614	0.84[EUR][1000 genomes]
rs71628697	0.85[EUR][1000 genomes]
rs71628699	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs822503	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs822519	0.88[CEU][hapmap]
rs822653	0.84[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155943600-155951400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr1:155948600-155951600	Flanking Active TSS	Primary B cells from cord blood	blood
3	chr1:155948600-155951600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
4	chr1:155948600-155951800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
5	chr1:155948600-155952000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
6	chr1:155948600-155952200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:155948600-155952200	Flanking Active TSS	Hela-S3	cervix
8	chr1:155948600-155953800	Flanking Active TSS	NHEK	skin
9	chr1:155948800-155951600	Flanking Active TSS	Primary B cells from peripheral blood	blood
10	chr1:155948800-155951800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr1:155948800-155953200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr1:155949000-155951400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
13	chr1:155949000-155951400	Enhancers	Spleen	Spleen
14	chr1:155949000-155951600	Enhancers	Placenta Amnion	Placenta Amnion
15	chr1:155949000-155951800	Enhancers	Liver	Liver
16	chr1:155949000-155952000	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr1:155949000-155952000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
18	chr1:155949000-155952600	Flanking Active TSS	HSMMtube	muscle
19	chr1:155949000-155953400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr1:155949000-155953800	Weak transcription	Pancreas	Pancrea
21	chr1:155949200-155951600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
22	chr1:155949200-155952000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:155949200-155952000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr1:155949200-155953400	Weak transcription	Brain Germinal Matrix	brain
25	chr1:155949200-155953800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:155949400-155951400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr1:155949400-155951600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr1:155949400-155951800	Enhancers	Brain Substantia Nigra	brain
29	chr1:155949400-155951800	Enhancers	Stomach Mucosa	stomach
30	chr1:155949400-155952000	Enhancers	Fetal Kidney	kidney
31	chr1:155949400-155953000	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr1:155949400-155953000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr1:155949400-155953400	Flanking Active TSS	NHLF	lung
34	chr1:155949400-155953800	Enhancers	HUVEC	blood vessel
35	chr1:155949600-155951000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr1:155949600-155951600	Flanking Active TSS	K562	blood
37	chr1:155949600-155951800	Enhancers	H1 Cell Line	embryonic stem cell
38	chr1:155949600-155951800	Enhancers	Fetal Intestine Large	intestine
39	chr1:155949600-155951800	Enhancers	Right Ventricle	heart
40	chr1:155949600-155952000	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr1:155949600-155952000	Genic enhancers	Fetal Stomach	stomach
42	chr1:155949600-155952000	Enhancers	Small Intestine	intestine
43	chr1:155949600-155952000	Flanking Active TSS	GM12878-XiMat	blood
44	chr1:155949600-155952600	Enhancers	Esophagus	oesophagus
45	chr1:155949600-155952600	Enhancers	Sigmoid Colon	Sigmoid Colon
46	chr1:155949600-155954200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
47	chr1:155949600-155954200	Enhancers	Fetal Lung	lung
48	chr1:155949600-155954400	Enhancers	Lung	lung
49	chr1:155949600-155954800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
50	chr1:155949600-155954800	Enhancers	Fetal Thymus	thymus

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