Variant report

Variant	rs10466710
Chromosome Location	chr11:77350337-77350338
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:5)
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	chr11:77350306-77350356	LNCaP	prostate:	n/a
2	chr11:77350306-77350356	HCPEpiC	choroid plexus:	n/a
3	chr11:77350306-77350356	HMEC	breast:	n/a
4	chr11:77350306-77350356	GM12878	blood:	n/a
5	chr11:77350306-77350356	HL-60	blood:	n/a
6	chr11:77350306-77350356	SKMC	muscle:	n/a
7	chr11:77350306-77350356	GM12891	blood:	n/a
8	chr11:77350306-77350356	HPAEpiC	pulmonary alveolar:	n/a
9	chr11:77350306-77350356	NHBE	bronchial:	n/a
10	chr11:77350306-77350356	AG09309	skin:	n/a
11	chr11:77350306-77350356	PANC-1	pancreas:	n/a
12	chr11:77350306-77350356	AoSMC	blood vessel:	n/a
13	chr11:77350306-77350356	HCF	heart:	n/a
14	chr11:77350306-77350356	HCM	heart:	n/a
15	chr11:77350306-77350356	SK-N-MC	brain:	n/a
16	chr11:77350306-77350356	NHDF-neo	bronchial:	n/a
17	chr11:77350306-77350356	HEK293	kidney:	embryo
18	chr11:77350306-77350356	ovcar-3	ovarian:	n/a
19	chr11:77350306-77350356	HNPCEpiC	eye:	n/a
20	chr11:77350306-77350356	Jurkat	blood:	n/a
21	chr11:77350306-77350356	BE2_C	brain:	n/a
22	chr11:77350306-77350356	AG09319	gingival:	n/a
23	chr11:77350306-77350356	ProgFib	skin:	n/a
24	chr11:77350306-77350356	T-47D	breast:	n/a
25	chr11:77350306-77350356	H1-hESC	embryonic stem cell:	embryo
26	chr11:77350306-77350356	RPTEC	kidney:	n/a
27	chr11:77350306-77350356	AG04449	skin:	fetal
28	chr11:77350306-77350356	HRCEpiC	kidney:	n/a
29	chr11:77350306-77350356	Hela-S3	cervix:	n/a
30	chr11:77350306-77350356	HEEpiC	esophagus:	n/a
31	chr11:77350306-77350356	MCF-7	breast:	n/a
32	chr11:77350306-77350356	U87	brain:	n/a
33	chr11:77350306-77350356	Caco-2	colon:	n/a
34	chr11:77350306-77350356	PrEC	prostate:	n/a
35	chr11:77350306-77350356	GM19239	blood:	n/a
36	chr11:77350306-77350356	A549	lung:	n/a
37	chr11:77350306-77350356	CMK	blood:	n/a
38	chr11:77350306-77350356	HCT-116	colon:	n/a
39	chr11:77350306-77350356	K562	blood:	n/a
40	chr11:77350306-77350356	BJ	skin:	n/a
41	chr11:77350306-77350356	MCF10A-Er-Src	breast:	n/a
42	chr11:77350306-77350356	GM06990	blood:	n/a
43	chr11:77350306-77350356	HRPEpiC	eye:	n/a
44	chr11:77350306-77350356	SAEC	small airway:	n/a
45	chr11:77350306-77350356	HUVEC	blood vessel:	n/a
46	chr11:77350306-77350356	NH-A	brain:	n/a
47	chr11:77350306-77350356	ECC-1	luminal epithelium:	n/a
48	chr11:77350306-77350356	NT2-D1	testis:	n/a
49	chr11:77350306-77350356	Hepatocyte	liver:	n/a
50	chr11:77350306-77350356	IMR90	lung:	fetal

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:77348896..77352381-chr11:77367150..77369998,3	K562	blood:
2	chr11:77345294..77350451-chr11:77530428..77533693,5	K562	blood:
3	chr11:77348923..77350961-chr11:77374857..77377115,2	K562	blood:
4	chr11:77348896..77351789-chr11:77367150..77369844,2	K562	blood:
5	chr11:77323618..77326962-chr11:77347441..77350809,3	MCF-7	breast:

No data

Variant related genes	Relation type
CLNS1A	CpG island
ENSG00000074201	Chromatin interaction
ENSG00000048649	Chromatin interaction
ENSG00000087884	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10793257	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.97[TSI][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899396	0.85[EUR][1000 genomes]
rs10899397	0.94[CHB][hapmap];0.84[CHD][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs10899401	0.94[CHB][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs11237264	0.82[EUR][1000 genomes]
rs12290511	0.85[ASN][1000 genomes]
rs12294668	0.94[CHB][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap]
rs12366072	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12418931	0.85[EUR][1000 genomes]
rs1945747	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[ASN][1000 genomes]
rs28451110	0.85[ASN][1000 genomes]
rs35711367	0.94[CHB][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap]
rs4366508	0.86[ASN][1000 genomes]
rs4944164	0.83[ASN][1000 genomes]
rs4945178	0.85[ASN][1000 genomes]
rs4945185	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6592728	0.85[ASN][1000 genomes]
rs6592730	0.86[ASN][1000 genomes]
rs6592737	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7114468	0.85[ASN][1000 genomes]
rs7117344	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7934977	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7943055	0.85[ASN][1000 genomes]
rs7943742	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048360	chr11:76900813-77387933	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv541089	chr11:76900813-77387933	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1049603	chr11:76900813-77520411	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv541090	chr11:76900813-77520411	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1038974	chr11:77284036-77431228	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	nsv1041384	chr11:77284558-77419809	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv1048892	chr11:77290458-77431228	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	nsv1053074	chr11:77290458-77435831	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	16 gene(s)	inside rSNPs	diseases
9	nsv468641	chr11:77301341-77420314	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
10	nsv555452	chr11:77301341-77420314	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
11	nsv1035494	chr11:77309696-77431228	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs10466710	KCTD14	cis	cerebellum	SCAN
rs10466710	AQP11	cis	parietal	SCAN
rs10466710	C11orf67	cis	cerebellum	SCAN
rs10466710	KCTD21	cis	cerebellum	SCAN
rs10466710	ALG8	cis	cerebellum	SCAN
rs10466710	UCP2	cis	parietal	SCAN
rs10466710	B3GNT6	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:77349400-77350400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr11:77349600-77352800	Weak transcription	Liver	Liver
3	chr11:77349600-77353200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:77349600-77354600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr11:77349600-77355600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr11:77349600-77355600	Weak transcription	Hela-S3	cervix
7	chr11:77349600-77355600	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links