Variant report

Variant	rs73234726
Chromosome Location	chr3:142610864-142610865
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:4)
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	chr3:142610864-142610914	HEK293	kidney:	embryo
2	chr3:142610864-142610914	HMEC	breast:	n/a
3	chr3:142610864-142610914	ovcar-3	ovarian:	n/a
4	chr3:142610864-142610914	HCT-116	colon:	n/a
5	chr3:142610864-142610914	HRE	kidney:	n/a
6	chr3:142610864-142610914	SK-N-SH_RA	brain:	n/a
7	chr3:142610864-142610914	HCF	heart:	n/a
8	chr3:142610864-142610914	HRPEpiC	eye:	n/a
9	chr3:142610864-142610914	HL-60	blood:	n/a
10	chr3:142610864-142610914	HCPEpiC	choroid plexus:	n/a
11	chr3:142610864-142610914	HUVEC	blood vessel:	n/a
12	chr3:142610864-142610914	PFSK-1	brain:	n/a
13	chr3:142610864-142610914	GM06990	blood:	n/a
14	chr3:142610864-142610914	PrEC	prostate:	n/a
15	chr3:142610864-142610914	U87	brain:	n/a
16	chr3:142610864-142610914	Caco-2	colon:	n/a
17	chr3:142610864-142610914	GM12891	blood:	n/a
18	chr3:142610864-142610914	HEEpiC	esophagus:	n/a
19	chr3:142610864-142610914	PANC-1	pancreas:	n/a
20	chr3:142610864-142610914	HIPEpiC	eye:	n/a
21	chr3:142610864-142610914	NB4	blood:	n/a
22	chr3:142610864-142610914	HPAEpiC	pulmonary alveolar:	n/a
23	chr3:142610864-142610914	IMR90	lung:	fetal
24	chr3:142610864-142610914	MCF10A-Er-Src	breast:	n/a
25	chr3:142610864-142610914	AG09309	skin:	n/a
26	chr3:142610864-142610914	SAEC	small airway:	n/a
27	chr3:142610864-142610914	HCM	heart:	n/a
28	chr3:142610864-142610914	GM12892	blood:	n/a
29	chr3:142610864-142610914	K562	blood:	n/a
30	chr3:142610864-142610914	LNCaP	prostate:	n/a
31	chr3:142610864-142610914	AG04449	skin:	fetal
32	chr3:142610864-142610914	AG04450	lung:	fetal
33	chr3:142610864-142610914	SK-N-MC	brain:	n/a
34	chr3:142610864-142610914	CMK	blood:	n/a
35	chr3:142610864-142610914	A549	lung:	n/a
36	chr3:142610864-142610914	HAEpiC	amniotic membrane:	n/a
37	chr3:142610864-142610914	SK-N-SH	brain:	n/a
38	chr3:142610864-142610914	Hela-S3	cervix:	n/a
39	chr3:142610864-142610914	NHDF-neo	bronchial:	n/a
40	chr3:142610864-142610914	HRCEpiC	kidney:	n/a
41	chr3:142610864-142610914	T-47D	breast:	n/a
42	chr3:142610864-142610914	ProgFib	skin:	n/a
43	chr3:142610864-142610914	NHBE	bronchial:	n/a
44	chr3:142610864-142610914	Hepatocyte	liver:	n/a
45	chr3:142610864-142610914	MCF-7	breast:	n/a
46	chr3:142610864-142610914	AG10803	skin:	n/a
47	chr3:142610864-142610914	AG09319	gingival:	n/a
48	chr3:142610864-142610914	Jurkat	blood:	n/a
49	chr3:142610864-142610914	AoSMC	blood vessel:	n/a
50	chr3:142610864-142610914	RPTEC	kidney:	n/a

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:142296468..142299283-chr3:142609997..142611852,2	MCF-7	breast:
2	chr3:142609483..142612071-chr3:142616369..142619084,2	K562	blood:
3	chr3:142598080..142600621-chr3:142609257..142610987,2	K562	blood:
4	chr3:142606798..142610492-chr3:142610655..142614860,4	K562	blood:

No data

Variant related genes	Relation type
PCOLCE2	CpG island
ENSG00000175054	Chromatin interaction
ENSG00000163710	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs16852815	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35783198	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55692570	0.97[EUR][1000 genomes]
rs55932307	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56331970	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56389497	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57217609	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57269734	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57755508	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs59064122	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60123913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60582377	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73232757	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73232770	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73234727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73234728	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73234729	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73234730	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73234735	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234737	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73234739	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234742	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234745	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234747	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234749	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234753	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234765	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877562	chr3:142573789-142846370	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv437342	chr3:142605233-142622834	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv437343	chr3:142607487-142622834	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv3506087	chr3:142609212-142614010	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv3506084	chr3:142609712-142613910	Flanking Active TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv3496393	chr3:142609738-142610941	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv3496394	chr3:142609738-142610941	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv3506088	chr3:142610248-142612881	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	esv3463561	chr3:142610248-142612883	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	esv3506086	chr3:142610271-142612846	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	esv3506083	chr3:142610303-142612813	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	esv3506082	chr3:142610364-142612765	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	esv3463562	chr3:142610368-142612763	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
14	esv3506089	chr3:142610368-142612763	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	esv12862	chr3:142610479-142612181	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
16	nsv437886	chr3:142610610-142611657	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv520851	chr3:142610610-142611657	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
18	nsv10332	chr3:142610676-142613653	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142608400-142615200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:142608600-142615200	Weak transcription	Hela-S3	cervix
3	chr3:142608600-142615400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:142608600-142617800	Weak transcription	Aorta	Aorta
5	chr3:142609600-142613400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:142609600-142616800	Weak transcription	Adipose Nuclei	Adipose
7	chr3:142610000-142615200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:142610600-142611800	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links