Variant report

Variant	rs13079104
Chromosome Location	chr3:81886039-81886040
allele	A/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: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	chr3:81886014-81886064	NT2-D1	testis:	n/a
2	chr3:81886014-81886064	NHBE	bronchial:	n/a
3	chr3:81886014-81886064	HRPEpiC	eye:	n/a
4	chr3:81886014-81886064	GM12892	blood:	n/a
5	chr3:81886014-81886064	HIPEpiC	eye:	n/a
6	chr3:81886014-81886064	IMR90	lung:	fetal
7	chr3:81886014-81886064	HNPCEpiC	eye:	n/a
8	chr3:81886014-81886064	HepG2	liver:	n/a
9	chr3:81886014-81886064	CMK	blood:	n/a
10	chr3:81886014-81886064	PFSK-1	brain:	n/a
11	chr3:81886014-81886064	HUVEC	blood vessel:	n/a
12	chr3:81886014-81886064	PrEC	prostate:	n/a
13	chr3:81886014-81886064	GM12891	blood:	n/a
14	chr3:81886014-81886064	T-47D	breast:	n/a
15	chr3:81886014-81886064	AG09309	skin:	n/a
16	chr3:81886014-81886064	HCM	heart:	n/a
17	chr3:81886014-81886064	SKMC	muscle:	n/a
18	chr3:81886014-81886064	AG10803	skin:	n/a
19	chr3:81886014-81886064	BJ	skin:	n/a
20	chr3:81886014-81886064	NHDF-neo	bronchial:	n/a
21	chr3:81886014-81886064	AG09319	gingival:	n/a
22	chr3:81886014-81886064	U87	brain:	n/a
23	chr3:81886014-81886064	ovcar-3	ovarian:	n/a
24	chr3:81886014-81886064	Jurkat	blood:	n/a
25	chr3:81886014-81886064	Hela-S3	cervix:	n/a
26	chr3:81886014-81886064	HPAEpiC	pulmonary alveolar:	n/a
27	chr3:81886014-81886064	RPTEC	kidney:	n/a
28	chr3:81886014-81886064	HMEC	breast:	n/a
29	chr3:81886014-81886064	Hepatocyte	liver:	n/a
30	chr3:81886014-81886064	GM06990	blood:	n/a
31	chr3:81886014-81886064	K562	blood:	n/a
32	chr3:81886014-81886064	HCT-116	colon:	n/a
33	chr3:81886014-81886064	ECC-1	luminal epithelium:	n/a
34	chr3:81886014-81886064	AoSMC	blood vessel:	n/a
35	chr3:81886014-81886064	GM12878	blood:	n/a
36	chr3:81886014-81886064	AG04450	lung:	fetal
37	chr3:81886014-81886064	SK-N-SH	brain:	n/a
38	chr3:81886014-81886064	HEEpiC	esophagus:	n/a
39	chr3:81886014-81886064	HCF	heart:	n/a
40	chr3:81886014-81886064	SAEC	small airway:	n/a
41	chr3:81886014-81886064	HL-60	blood:	n/a
42	chr3:81886014-81886064	A549	lung:	n/a
43	chr3:81886014-81886064	BE2_C	brain:	n/a
44	chr3:81886014-81886064	H1-hESC	embryonic stem cell:	embryo
45	chr3:81886014-81886064	ProgFib	skin:	n/a
46	chr3:81886014-81886064	NB4	blood:	n/a
47	chr3:81886014-81886064	HRE	kidney:	n/a
48	chr3:81886014-81886064	NH-A	brain:	n/a
49	chr3:81886014-81886064	MCF10A-Er-Src	breast:	n/a
50	chr3:81886014-81886064	Caco-2	colon:	n/a

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:81885124..81886646-chr3:81889084..81891267,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000242009	CpG island
ENSG00000242009	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11127740	0.96[CEU][hapmap];0.92[YRI][hapmap]
rs11127742	0.81[EUR][1000 genomes]
rs11707026	0.91[CEU][hapmap];0.95[GIH][hapmap]
rs11711024	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11711331	0.86[GIH][hapmap];0.82[TSI][hapmap]
rs11712243	0.84[EUR][1000 genomes]
rs11715625	0.85[EUR][1000 genomes]
rs12152272	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062741	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13065281	0.91[CEU][hapmap]
rs13072957	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[GIH][hapmap];0.82[MKK][hapmap];0.85[TSI][hapmap]
rs13073613	0.83[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13074632	0.81[EUR][1000 genomes]
rs13075250	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13080520	0.96[CEU][hapmap];0.95[GIH][hapmap];0.84[EUR][1000 genomes]
rs13083476	0.84[EUR][1000 genomes]
rs13091492	0.84[EUR][1000 genomes]
rs13092157	0.93[EUR][1000 genomes]
rs13099615	0.95[CEU][hapmap]
rs1464790	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[GIH][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs1464791	0.89[EUR][1000 genomes]
rs1524557	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17019299	0.88[EUR][1000 genomes]
rs1851930	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2053805	0.96[CEU][hapmap];0.97[GIH][hapmap];0.81[MKK][hapmap];0.85[TSI][hapmap]
rs2229519	0.91[CEU][hapmap];0.95[GIH][hapmap]
rs2873054	0.89[EUR][1000 genomes]
rs3755713	0.95[CEU][hapmap];0.81[CHB][hapmap];0.97[GIH][hapmap];0.86[MKK][hapmap];0.81[TSI][hapmap]
rs3772882	0.82[GIH][hapmap]
rs3772883	0.82[GIH][hapmap]
rs3772884	0.96[CEU][hapmap];0.81[CHB][hapmap];0.92[MKK][hapmap];0.85[TSI][hapmap]
rs3772896	0.82[CEU][hapmap]
rs3821548	0.83[CEU][hapmap];0.86[GIH][hapmap];0.82[TSI][hapmap]
rs3821551	0.96[CEU][hapmap]
rs3821552	0.91[CEU][hapmap]
rs3849570	0.86[GIH][hapmap];0.82[TSI][hapmap]
rs3849571	0.83[CEU][hapmap]
rs3943556	0.95[CEU][hapmap]
rs4411908	0.82[GIH][hapmap]
rs6765917	0.89[EUR][1000 genomes]
rs6792696	0.87[EUR][1000 genomes]
rs6795133	0.95[CEU][hapmap];1.00[GIH][hapmap];0.82[MKK][hapmap];0.84[TSI][hapmap]
rs6804587	0.86[EUR][1000 genomes]
rs7620240	0.83[CEU][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap]
rs7631052	0.91[EUR][1000 genomes]
rs7634258	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[GIH][hapmap];0.88[MKK][hapmap];0.85[TSI][hapmap]
rs7641973	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7648245	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9841087	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949545	chr3:81523898-81893929	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv999992	chr3:81693662-82015969	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv536605	chr3:81693662-82015969	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81883400-81886600	Weak transcription	Dnd41	blood
2	chr3:81885200-81889000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:81885400-81886600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:81885400-81889600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:81885600-81886200	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:81885800-81886200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:81885800-81886200	Enhancers	A549	lung
8	chr3:81885800-81886400	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr3:81885800-81888400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:81886000-81886200	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr3:81886000-81886800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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