Variant report

Variant	rs12633948
Chromosome Location	chr3:97978880-97978881
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:24)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:24 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:97978740-97978890	HL-60	blood:	n/a	n/a
2	CTCF	chr3:97978740-97978890	GM12865	blood:	n/a	n/a
3	CTCF	chr3:97978740-97978890	BE2_C	brain:	n/a	n/a
4	CTCF	chr3:97978760-97978910	GM06990	blood:	n/a	n/a
5	CTCF	chr3:97978599-97978946	GM12878	blood:	n/a	n/a
6	RAD21	chr3:97978565-97978931	H1-hESC	embryonic stem cell:	n/a	n/a
7	CTCF	chr3:97978760-97978910	GM12865	blood:	n/a	n/a
8	RAD21	chr3:97978632-97978937	H1-hESC	embryonic stem cell:	n/a	n/a
9	CTCF	chr3:97978740-97978890	SAEC	small airway:	n/a	n/a
10	CTCF	chr3:97978653-97978881	GM12892	blood:	n/a	n/a
11	CTCF	chr3:97978594-97978885	H1-hESC	embryonic stem cell:	n/a	n/a
12	CTCF	chr3:97978572-97978895	H1-hESC	embryonic stem cell:	n/a	n/a
13	CTCF	chr3:97978760-97978910	HVMF	connective:	n/a	n/a
14	CTCF	chr3:97978760-97978910	GM12870	blood:	n/a	n/a
15	CTCF	chr3:97978670-97978895	Gliobla	brain:	n/a	n/a
16	CTCF	chr3:97978740-97978890	HEEpiC	esophagus:	n/a	n/a
17	RAD21	chr3:97978564-97978977	H1-hESC	embryonic stem cell:	n/a	n/a
18	CTCF	chr3:97978740-97978890	GM12866	blood:	n/a	n/a
19	CTCF	chr3:97978677-97978902	GM19240	blood:	n/a	n/a
20	CTCF	chr3:97978719-97978887	Medullo	brain:	n/a	n/a
21	CTCF	chr3:97978640-97978899	GM19238	blood:	n/a	n/a
22	CTCF	chr3:97978668-97978886	H1-hESC	embryonic stem cell:	n/a	n/a
23	CTCF	chr3:97978740-97978890	GM12875	blood:	n/a	n/a
24	CTCF	chr3:97978740-97978890	GM12872	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:97978738..97980851-chr3:98012803..98015207,2	MCF-7	breast:
2	chr3:97977847..97980147-chr3:97980537..97982058,2	MCF-7	breast:

No data

Variant related genes	Relation type
OR5H6	TF binding region

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1008191	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1123188	0.85[ASN][1000 genomes]
rs11917362	0.94[ASN][1000 genomes]
rs11929098	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12631405	0.84[ASN][1000 genomes]
rs12632368	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12632378	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12636903	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12636942	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12637336	0.91[AMR][1000 genomes]
rs12637340	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12637769	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12638749	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12638827	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13060711	0.94[AMR][1000 genomes]
rs13066311	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13075581	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13079269	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13080412	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13080694	0.80[AMR][1000 genomes]
rs13086001	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13088051	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13096400	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1391152	0.80[AMR][1000 genomes]
rs16839427	0.80[AMR][1000 genomes]
rs16839430	0.80[AMR][1000 genomes]
rs16839647	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1846081	0.84[ASN][1000 genomes]
rs2132898	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2316269	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs34156823	0.84[ASN][1000 genomes]
rs34298341	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34616628	0.87[AMR][1000 genomes]
rs34721537	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs34829706	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs34990660	0.94[AMR][1000 genomes]
rs35133117	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs35212708	0.80[AMR][1000 genomes]
rs35370148	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs35468350	0.80[AMR][1000 genomes]
rs35584221	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs35866150	0.87[AMR][1000 genomes]
rs36064521	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4519740	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4574333	0.82[AMR][1000 genomes]
rs4857086	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4857363	0.85[ASN][1000 genomes]
rs56220142	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs59697145	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62267258	0.84[ASN][1000 genomes]
rs66498739	0.80[AMR][1000 genomes]
rs6805802	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs71311371	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7641621	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7641820	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9790053	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv963576	chr3:97825434-98041343	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv877210	chr3:97866177-97992964	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv432462	chr3:97918267-98001710	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv877212	chr3:97931105-98033400	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv1842860	chr3:97934241-98075543	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1004762	chr3:97935701-98000227	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1008569	chr3:97937168-97983117	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1009918	chr3:97946030-98155450	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
14	nsv965340	chr3:97957002-97980365	Weak transcription Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	esv3444875	chr3:97957818-97983549	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv877213	chr3:97973670-97992964	Enhancers ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3399236	chr3:97977397-97988329	Inactive region	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links