Variant report

Variant	rs6689429
Chromosome Location	chr1:159557521-159557522
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr1:159557520-159557670	Caco-2	colon:	n/a	n/a
2	CTCF	chr1:159557460-159557610	SK-N-SH_RA	brain:	n/a	chr1:159557513-159557526
3	CTCF	chr1:159557520-159557670	HEK293	kidney:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:159557514-159557564	RPTEC	kidney:	n/a
2	chr1:159557514-159557564	A549	lung:	n/a
3	chr1:159557514-159557564	Caco-2	colon:	n/a
4	chr1:159557514-159557564	HCT-116	colon:	n/a
5	chr1:159557514-159557564	U87	brain:	n/a
6	chr1:159557514-159557564	HCPEpiC	choroid plexus:	n/a
7	chr1:159557514-159557564	HRPEpiC	eye:	n/a
8	chr1:159557514-159557564	AoSMC	blood vessel:	n/a
9	chr1:159557514-159557564	NT2-D1	testis:	n/a
10	chr1:159557514-159557564	K562	blood:	n/a
11	chr1:159557514-159557564	Jurkat	blood:	n/a
12	chr1:159557514-159557564	AG09319	gingival:	n/a
13	chr1:159557514-159557564	HL-60	blood:	n/a
14	chr1:159557514-159557564	ECC-1	luminal epithelium:	n/a
15	chr1:159557514-159557564	HAEpiC	amniotic membrane:	n/a
16	chr1:159557514-159557564	ovcar-3	ovarian:	n/a
17	chr1:159557514-159557564	NH-A	brain:	n/a
18	chr1:159557514-159557564	HEEpiC	esophagus:	n/a
19	chr1:159557514-159557564	HEK293	kidney:	embryo
20	chr1:159557514-159557564	HCF	heart:	n/a
21	chr1:159557514-159557564	NHBE	bronchial:	n/a
22	chr1:159557514-159557564	Hela-S3	cervix:	n/a
23	chr1:159557514-159557564	GM06990	blood:	n/a
24	chr1:159557514-159557564	H1-hESC	embryonic stem cell:	embryo
25	chr1:159557514-159557564	GM19239	blood:	n/a
26	chr1:159557514-159557564	HIPEpiC	eye:	n/a
27	chr1:159557514-159557564	Hepatocyte	liver:	n/a
28	chr1:159557514-159557564	NB4	blood:	n/a
29	chr1:159557514-159557564	T-47D	breast:	n/a
30	chr1:159557514-159557564	ProgFib	skin:	n/a
31	chr1:159557514-159557564	MCF10A-Er-Src	breast:	n/a
32	chr1:159557514-159557564	SAEC	small airway:	n/a
33	chr1:159557514-159557564	GM12892	blood:	n/a
34	chr1:159557514-159557564	HRE	kidney:	n/a
35	chr1:159557514-159557564	HNPCEpiC	eye:	n/a
36	chr1:159557514-159557564	BJ	skin:	n/a
37	chr1:159557514-159557564	NHDF-neo	bronchial:	n/a
38	chr1:159557514-159557564	AG10803	skin:	n/a
39	chr1:159557514-159557564	AG04450	lung:	fetal
40	chr1:159557514-159557564	AG04449	skin:	fetal
41	chr1:159557514-159557564	HRCEpiC	kidney:	n/a
42	chr1:159557514-159557564	SK-N-SH	brain:	n/a
43	chr1:159557514-159557564	SK-N-SH_RA	brain:	n/a
44	chr1:159557514-159557564	BE2_C	brain:	n/a
45	chr1:159557514-159557564	CMK	blood:	n/a
46	chr1:159557514-159557564	GM12891	blood:	n/a
47	chr1:159557514-159557564	HCM	heart:	n/a
48	chr1:159557514-159557564	LNCaP	prostate:	n/a
49	chr1:159557514-159557564	SK-N-MC	brain:	n/a
50	chr1:159557514-159557564	SKMC	muscle:	n/a

No data

Variant related genes	Relation type
APCS	TF binding region
APCS	CpG island

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1037143	0.80[AFR][1000 genomes]
rs1037145	0.80[AFR][1000 genomes]
rs10797050	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10908736	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10908737	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11265240	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156411	0.80[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12037510	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1374486	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1446966	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1562384	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1562388	0.80[AFR][1000 genomes]
rs1900393	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2197619	0.95[ASN][1000 genomes]
rs2244698	0.96[ASN][1000 genomes]
rs2794523	0.80[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2794524	0.80[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs3753867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3753868	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3753869	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3753870	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4584389	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61582984	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6681315	0.90[ASN][1000 genomes]
rs6695377	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6695494	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7527322	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7530926	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7531040	0.92[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7541411	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][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	nsv1005195	chr1:159452759-159910337	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh 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	90 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159557200-159557800	Enhancers	Pancreas	Pancrea
2	chr1:159557400-159561200	Active TSS	Liver	Liver

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