Variant report

Variant	rs7558672
Chromosome Location	chr2:113825303-113825304
allele	A/G
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:1)
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	chr2:113825302-113825352	AG09309	skin:	n/a
2	chr2:113825302-113825352	HUVEC	blood vessel:	n/a
3	chr2:113825302-113825352	AoSMC	blood vessel:	n/a
4	chr2:113825302-113825352	PANC-1	pancreas:	n/a
5	chr2:113825302-113825352	HPAEpiC	pulmonary alveolar:	n/a
6	chr2:113825302-113825352	NB4	blood:	n/a
7	chr2:113825302-113825352	HCPEpiC	choroid plexus:	n/a
8	chr2:113825302-113825352	HCM	heart:	n/a
9	chr2:113825302-113825352	SK-N-MC	brain:	n/a
10	chr2:113825302-113825352	PFSK-1	brain:	n/a
11	chr2:113825302-113825352	GM06990	blood:	n/a
12	chr2:113825302-113825352	Hepatocyte	liver:	n/a
13	chr2:113825302-113825352	HRE	kidney:	n/a
14	chr2:113825302-113825352	HMEC	breast:	n/a
15	chr2:113825302-113825352	HRCEpiC	kidney:	n/a
16	chr2:113825302-113825352	BE2_C	brain:	n/a
17	chr2:113825302-113825352	Jurkat	blood:	n/a
18	chr2:113825302-113825352	HIPEpiC	eye:	n/a
19	chr2:113825302-113825352	SAEC	small airway:	n/a
20	chr2:113825302-113825352	NHDF-neo	bronchial:	n/a
21	chr2:113825302-113825352	GM12878	blood:	n/a
22	chr2:113825302-113825352	HEEpiC	esophagus:	n/a
23	chr2:113825302-113825352	CMK	blood:	n/a
24	chr2:113825302-113825352	HRPEpiC	eye:	n/a
25	chr2:113825302-113825352	GM12892	blood:	n/a
26	chr2:113825302-113825352	AG04450	lung:	fetal
27	chr2:113825302-113825352	HAEpiC	amniotic membrane:	n/a
28	chr2:113825302-113825352	A549	lung:	n/a
29	chr2:113825302-113825352	AG10803	skin:	n/a
30	chr2:113825302-113825352	GM19239	blood:	n/a
31	chr2:113825302-113825352	K562	blood:	n/a
32	chr2:113825302-113825352	NH-A	brain:	n/a
33	chr2:113825302-113825352	GM12891	blood:	n/a
34	chr2:113825302-113825352	Caco-2	colon:	n/a
35	chr2:113825302-113825352	AG09319	gingival:	n/a
36	chr2:113825302-113825352	BJ	skin:	n/a
37	chr2:113825302-113825352	HL-60	blood:	n/a
38	chr2:113825302-113825352	Hela-S3	cervix:	n/a
39	chr2:113825302-113825352	IMR90	lung:	fetal
40	chr2:113825302-113825352	NT2-D1	testis:	n/a
41	chr2:113825302-113825352	NHBE	bronchial:	n/a
42	chr2:113825302-113825352	HEK293	kidney:	embryo
43	chr2:113825302-113825352	ProgFib	skin:	n/a
44	chr2:113825302-113825352	RPTEC	kidney:	n/a
45	chr2:113825302-113825352	HNPCEpiC	eye:	n/a
46	chr2:113825302-113825352	MCF-7	breast:	n/a
47	chr2:113825302-113825352	PrEC	prostate:	n/a
48	chr2:113825302-113825352	MCF10A-Er-Src	breast:	n/a
49	chr2:113825302-113825352	HCT-116	colon:	n/a
50	chr2:113825302-113825352	U87	brain:	n/a

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:113816411..113818730-chr2:113824215..113826075,2	K562	blood:

No data

Variant related genes	Relation type
IL1F10	CpG island
ENSG00000136695	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10179714	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10184277	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10496448	1.00[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1446519	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1446520	1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17042709	0.87[CHB][hapmap];0.84[CHD][hapmap]
rs17042735	0.87[CHB][hapmap];0.84[CHD][hapmap]
rs17042786	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.93[ASN][1000 genomes]
rs17043031	1.00[AMR][1000 genomes]
rs28928271	1.00[AMR][1000 genomes]
rs28928286	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.91[ASN][1000 genomes]
rs28929173	1.00[AMR][1000 genomes]
rs28938772	1.00[AMR][1000 genomes]
rs34433610	1.00[AMR][1000 genomes]
rs34510646	1.00[AMR][1000 genomes]
rs35354222	1.00[AMR][1000 genomes]
rs35528124	1.00[AMR][1000 genomes]
rs35626718	1.00[AMR][1000 genomes]
rs35724334	1.00[AMR][1000 genomes]
rs35797500	1.00[AMR][1000 genomes]
rs35835383	1.00[AMR][1000 genomes]
rs35985961	1.00[AMR][1000 genomes]
rs36026956	1.00[AMR][1000 genomes]
rs36100241	1.00[AMR][1000 genomes]
rs3752739	0.87[CHB][hapmap];0.84[CHD][hapmap]
rs3811049	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3811050	0.83[CHB][hapmap]
rs45527538	1.00[AMR][1000 genomes]
rs45549331	1.00[AMR][1000 genomes]
rs6755354	0.82[CHB][hapmap]
rs6756735	0.81[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72944561	1.00[AMR][1000 genomes]
rs72944568	1.00[AMR][1000 genomes]
rs72944570	1.00[AMR][1000 genomes]
rs72944577	1.00[AMR][1000 genomes]
rs72944582	1.00[AMR][1000 genomes]
rs72952607	1.00[AMR][1000 genomes]
rs72952636	1.00[AMR][1000 genomes]
rs7575934	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532471	chr2:113682449-113862981	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv997348	chr2:113688093-113986508	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1007254	chr2:113726982-113887782	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv535894	chr2:113726982-113887782	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv2881	chr2:113800805-113846597	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 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	chr2:113817000-113825400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr2:113817600-113826200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:113820600-113826600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:113824400-113826600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr2:113825000-113826600	Enhancers	Placenta	Placenta
6	chr2:113825200-113827800	Enhancers	Fetal Intestine Large	intestine
7	chr2:113825200-113828200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr2:113825200-113828200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links