Variant report

Variant	rs2104670
Chromosome Location	chr10:27545486-27545487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:61)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr10:27545482-27545492	MCF-7	breast:	n/a	n/a
2	POLR2A	chr10:27545396-27545608	MCF-7	breast:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr10:27545466-27545516	SKMC	muscle:	n/a
2	chr10:27545466-27545516	PANC-1	pancreas:	n/a
3	chr10:27545466-27545516	AoSMC	blood vessel:	n/a
4	chr10:27545466-27545516	HCM	heart:	n/a
5	chr10:27545466-27545516	HNPCEpiC	eye:	n/a
6	chr10:27545466-27545516	RPTEC	kidney:	n/a
7	chr10:27545466-27545516	Jurkat	blood:	n/a
8	chr10:27545466-27545516	HIPEpiC	eye:	n/a
9	chr10:27545466-27545516	MCF-7	breast:	n/a
10	chr10:27545466-27545516	AG09319	gingival:	n/a
11	chr10:27545466-27545516	ovcar-3	ovarian:	n/a
12	chr10:27545466-27545516	NHBE	bronchial:	n/a
13	chr10:27545466-27545516	T-47D	breast:	n/a
14	chr10:27545466-27545516	HRPEpiC	eye:	n/a
15	chr10:27545466-27545516	AG09309	skin:	n/a
16	chr10:27545466-27545516	HCT-116	colon:	n/a
17	chr10:27545466-27545516	BJ	skin:	n/a
18	chr10:27545466-27545516	SK-N-SH_RA	brain:	n/a
19	chr10:27545466-27545516	BE2_C	brain:	n/a
20	chr10:27545466-27545516	NHDF-neo	bronchial:	n/a
21	chr10:27545466-27545516	CMK	blood:	n/a
22	chr10:27545466-27545516	Hepatocyte	liver:	n/a
23	chr10:27545466-27545516	IMR90	lung:	fetal
24	chr10:27545466-27545516	LNCaP	prostate:	n/a
25	chr10:27545466-27545516	U87	brain:	n/a
26	chr10:27545466-27545516	NH-A	brain:	n/a
27	chr10:27545466-27545516	PrEC	prostate:	n/a
28	chr10:27545466-27545516	Hela-S3	cervix:	n/a
29	chr10:27545466-27545516	GM12892	blood:	n/a
30	chr10:27545466-27545516	HAEpiC	amniotic membrane:	n/a
31	chr10:27545466-27545516	GM12878	blood:	n/a
32	chr10:27545466-27545516	MCF10A-Er-Src	breast:	n/a
33	chr10:27545466-27545516	AG04450	lung:	fetal
34	chr10:27545466-27545516	HL-60	blood:	n/a
35	chr10:27545466-27545516	GM12891	blood:	n/a
36	chr10:27545466-27545516	HCF	heart:	n/a
37	chr10:27545466-27545516	HEEpiC	esophagus:	n/a
38	chr10:27545466-27545516	AG04449	skin:	fetal
39	chr10:27545466-27545516	K562	blood:	n/a
40	chr10:27545466-27545516	SK-N-MC	brain:	n/a
41	chr10:27545466-27545516	HPAEpiC	pulmonary alveolar:	n/a
42	chr10:27545466-27545516	NB4	blood:	n/a
43	chr10:27545466-27545516	H1-hESC	embryonic stem cell:	embryo
44	chr10:27545466-27545516	NT2-D1	testis:	n/a
45	chr10:27545466-27545516	SAEC	small airway:	n/a
46	chr10:27545466-27545516	PFSK-1	brain:	n/a
47	chr10:27545466-27545516	ProgFib	skin:	n/a
48	chr10:27545466-27545516	HEK293	kidney:	embryo
49	chr10:27545466-27545516	HepG2	liver:	n/a
50	chr10:27545466-27545516	GM06990	blood:	n/a

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:27540317..27543087-chr10:27544102..27547353,4	MCF-7	breast:
2	chr10:27443226..27445313-chr10:27544417..27546363,2	MCF-7	breast:
3	chr10:27541565..27543150-chr10:27544289..27546288,2	K562	blood:
4	chr10:27529693..27532535-chr10:27543299..27546375,3	MCF-7	breast:
5	chr10:27529474..27534457-chr10:27540904..27545668,8	MCF-7	breast:

No data

Variant related genes	Relation type
ARMC4P1	TF binding region
LRRC37A6P	TF binding region
ARMC4P1	CpG island
LRRC37A6P	CpG island
ENSG00000120539	Chromatin interaction
ENSG00000262412	Chromatin interaction
ENSG00000107897	Chromatin interaction
ENSG00000230445	Chromatin interaction
ENSG00000136758	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1144509	0.84[CEU][hapmap];0.94[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1148169	0.95[ASN][1000 genomes]
rs12763511	0.82[EUR][1000 genomes]
rs12772875	0.81[EUR][1000 genomes]
rs1618826	0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs1753385	0.95[ASN][1000 genomes]
rs1753387	0.82[EUR][1000 genomes]
rs1753394	0.84[CHB][hapmap]
rs1775348	0.82[EUR][1000 genomes]
rs1775354	0.82[EUR][1000 genomes]
rs1780090	0.85[ASN][1000 genomes]
rs1780093	0.85[ASN][1000 genomes]
rs1831186	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1831187	0.84[CEU][hapmap];0.89[CHB][hapmap];0.91[ASN][1000 genomes]
rs1831188	0.91[ASN][1000 genomes]
rs1974364	0.82[EUR][1000 genomes]
rs2026015	0.85[CEU][hapmap]
rs2104671	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2368221	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2483499	0.91[ASN][1000 genomes]
rs2488368	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2488369	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2770200	0.89[ASN][1000 genomes]
rs2770201	0.84[CEU][hapmap];0.94[CHB][hapmap];0.84[ASN][1000 genomes]
rs2780665	0.84[ASN][1000 genomes]
rs2780669	0.85[ASN][1000 genomes]
rs2780670	0.84[CEU][hapmap];0.94[CHB][hapmap];0.85[ASN][1000 genomes]
rs2780671	0.94[CHB][hapmap];0.85[ASN][1000 genomes]
rs2780673	0.82[ASN][1000 genomes]
rs2780677	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2797079	0.85[ASN][1000 genomes]
rs2797080	0.95[ASN][1000 genomes]
rs2800391	0.85[ASN][1000 genomes]
rs2800393	0.84[CEU][hapmap];0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs2800394	0.85[ASN][1000 genomes]
rs2800395	0.85[ASN][1000 genomes]
rs2800397	0.83[ASN][1000 genomes]
rs2800398	0.82[ASN][1000 genomes]
rs2800399	0.84[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2800402	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2800403	0.84[CEU][hapmap]
rs2800405	0.80[ASN][1000 genomes]
rs2800407	0.95[ASN][1000 genomes]
rs35209475	0.81[ASN][1000 genomes]
rs4747595	0.85[CEU][hapmap];0.94[CHB][hapmap];0.80[ASN][1000 genomes]
rs480738	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs484172	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs501495	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs502416	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs527192	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs534226	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs559839	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs576161	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs590142	0.83[EUR][1000 genomes]
rs604705	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs618050	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs623380	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs624106	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs630317	0.84[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs640284	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs642428	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs642430	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6482604	0.81[EUR][1000 genomes]
rs693965	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs788201	0.83[CHB][hapmap]
rs788202	0.84[CHB][hapmap]
rs788203	0.88[CHB][hapmap]
rs788207	0.81[EUR][1000 genomes]
rs788212	0.85[CEU][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs788215	0.83[CEU][hapmap];0.94[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs788216	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs7896532	0.82[EUR][1000 genomes]
rs7902034	0.84[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap]
rs7914155	0.85[ASN][1000 genomes]
rs7917207	0.84[ASN][1000 genomes]
rs944909	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422253	chr10:27431366-27575370	Strong transcription Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3337781	chr10:27472216-27666703	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27538000-27547200	Weak transcription	Fetal Heart	heart
2	chr10:27541800-27546800	Weak transcription	HSMMtube	muscle
3	chr10:27542000-27547400	Weak transcription	Right Ventricle	heart
4	chr10:27542000-27547600	Weak transcription	Pancreas	Pancrea
5	chr10:27542400-27546200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr10:27542600-27546600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr10:27542800-27545800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr10:27545000-27546000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:27545200-27545800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
10	chr10:27545200-27546200	ZNF genes & repeats	GM12878-XiMat	blood
11	chr10:27545400-27545800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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