Variant report

Variant	rs56022581
Chromosome Location	chr3:191178814-191178815
allele	C/T
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:0)
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	chr3:191178814-191178864	HEK293	kidney:	embryo
2	chr3:191178814-191178864	NH-A	brain:	n/a
3	chr3:191178814-191178864	AG09319	gingival:	n/a
4	chr3:191178814-191178864	Jurkat	blood:	n/a
5	chr3:191178814-191178864	BE2_C	brain:	n/a
6	chr3:191178814-191178864	GM12892	blood:	n/a
7	chr3:191178814-191178864	IMR90	lung:	fetal
8	chr3:191178814-191178864	PrEC	prostate:	n/a
9	chr3:191178814-191178864	HNPCEpiC	eye:	n/a
10	chr3:191178814-191178864	HCT-116	colon:	n/a
11	chr3:191178814-191178864	U87	brain:	n/a
12	chr3:191178814-191178864	HCM	heart:	n/a
13	chr3:191178814-191178864	HEEpiC	esophagus:	n/a
14	chr3:191178814-191178864	SAEC	small airway:	n/a
15	chr3:191178814-191178864	HRPEpiC	eye:	n/a
16	chr3:191178814-191178864	MCF10A-Er-Src	breast:	n/a
17	chr3:191178814-191178864	HRE	kidney:	n/a
18	chr3:191178814-191178864	A549	lung:	n/a
19	chr3:191178814-191178864	ECC-1	luminal epithelium:	n/a
20	chr3:191178814-191178864	ovcar-3	ovarian:	n/a
21	chr3:191178814-191178864	HMEC	breast:	n/a
22	chr3:191178814-191178864	HRCEpiC	kidney:	n/a
23	chr3:191178814-191178864	AG09309	skin:	n/a
24	chr3:191178814-191178864	T-47D	breast:	n/a
25	chr3:191178814-191178864	GM06990	blood:	n/a
26	chr3:191178814-191178864	NB4	blood:	n/a
27	chr3:191178814-191178864	GM12891	blood:	n/a
28	chr3:191178814-191178864	HAEpiC	amniotic membrane:	n/a
29	chr3:191178814-191178864	Caco-2	colon:	n/a
30	chr3:191178814-191178864	AoSMC	blood vessel:	n/a
31	chr3:191178814-191178864	NHBE	bronchial:	n/a
32	chr3:191178814-191178864	BJ	skin:	n/a
33	chr3:191178814-191178864	HCPEpiC	choroid plexus:	n/a
34	chr3:191178814-191178864	MCF-7	breast:	n/a
35	chr3:191178814-191178864	RPTEC	kidney:	n/a
36	chr3:191178814-191178864	AG04450	lung:	fetal
37	chr3:191178814-191178864	LNCaP	prostate:	n/a
38	chr3:191178814-191178864	GM12878	blood:	n/a
39	chr3:191178814-191178864	HepG2	liver:	n/a
40	chr3:191178814-191178864	AG04449	skin:	fetal
41	chr3:191178814-191178864	HUVEC	blood vessel:	n/a
42	chr3:191178814-191178864	PFSK-1	brain:	n/a
43	chr3:191178814-191178864	ProgFib	skin:	n/a
44	chr3:191178814-191178864	PANC-1	pancreas:	n/a
45	chr3:191178814-191178864	SK-N-MC	brain:	n/a
46	chr3:191178814-191178864	SK-N-SH	brain:	n/a
47	chr3:191178814-191178864	HIPEpiC	eye:	n/a
48	chr3:191178814-191178864	NHDF-neo	bronchial:	n/a
49	chr3:191178814-191178864	Hela-S3	cervix:	n/a
50	chr3:191178814-191178864	Hepatocyte	liver:	n/a

No data

Variant related genes	Relation type
PYDC2	CpG island

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1125880	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12497197	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1583433	0.96[ASN][1000 genomes]
rs2164234	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2886242	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs5007454	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56092200	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73189533	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73189536	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73189540	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73189552	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73189559	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931943	chr3:190860224-191321873	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2757910	chr3:190867011-191279107	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2759209	chr3:190867011-191279107	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv428428	chr3:190936834-191215596	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv534269	chr3:191037181-191261730	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	esv3432654	chr3:191161299-191183570	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv878108	chr3:191175215-191223664	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:191175400-191190200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links