Variant report

Variant	rs7763159
Chromosome Location	chr6:30067681-30067682
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30043035..30044565-chr6:30066202..30069074,2	MCF-7	breast:
2	chr6:30039673..30045870-chr6:30065915..30071954,9	MCF-7	breast:
3	chr6:30059482..30063646-chr6:30064744..30071169,8	MCF-7	breast:
4	chr6:30031856..30036259-chr6:30064937..30071315,10	MCF-7	breast:
5	chr6:30059663..30061808-chr6:30067229..30070058,2	K562	blood:
6	chr6:30067195..30070112-chr6:30098151..30100617,2	MCF-7	breast:
7	chr6:30027914..30030220-chr6:30065122..30067982,3	MCF-7	breast:
8	chr6:30039276..30042217-chr6:30067253..30069841,2	K562	blood:
9	chr6:30063791..30066840-chr6:30067476..30070156,3	MCF-7	breast:
10	chr6:30067592..30070049-chr6:30312859..30314391,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000241370	Chromatin interaction
ENSG00000204618	Chromatin interaction
ENSG00000204623	Chromatin interaction
ENSG00000066379	Chromatin interaction
ENSG00000204619	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1061536	0.85[EUR][1000 genomes]
rs3094145	0.94[EUR][1000 genomes]
rs3121593	0.94[EUR][1000 genomes]
rs3121595	0.92[EUR][1000 genomes]
rs3121596	0.94[EUR][1000 genomes]
rs3121597	0.81[EUR][1000 genomes]
rs3130397	0.91[ASN][1000 genomes]
rs3132128	0.94[EUR][1000 genomes]
rs3132130	0.94[EUR][1000 genomes]
rs3132675	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3132676	0.91[ASN][1000 genomes]
rs3132683	0.94[EUR][1000 genomes]
rs3134881	0.94[EUR][1000 genomes]
rs3893259	0.86[EUR][1000 genomes]
rs4472395	0.86[EUR][1000 genomes]
rs4959036	0.86[EUR][1000 genomes]
rs5025708	0.87[EUR][1000 genomes]
rs6539	0.94[EUR][1000 genomes]
rs6928431	0.94[EUR][1000 genomes]
rs9260676	0.86[EUR][1000 genomes]
rs9260685	0.86[EUR][1000 genomes]
rs9260702	0.86[EUR][1000 genomes]
rs9260706	0.86[EUR][1000 genomes]
rs9260761	0.86[EUR][1000 genomes]
rs9260786	0.86[EUR][1000 genomes]
rs9260808	0.88[EUR][1000 genomes]
rs9260857	0.91[EUR][1000 genomes]
rs9260973	0.91[EUR][1000 genomes]
rs9260997	0.92[EUR][1000 genomes]
rs9261061	0.92[EUR][1000 genomes]
rs9261136	0.92[EUR][1000 genomes]
rs9261142	0.93[EUR][1000 genomes]
rs9261143	0.94[EUR][1000 genomes]
rs9261211	0.94[EUR][1000 genomes]
rs9261212	0.94[EUR][1000 genomes]
rs9261269	0.94[EUR][1000 genomes]
rs9261402	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261434	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261494	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432866	chr6:30026321-30080921	Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv884051	chr6:30059451-30071279	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv884050	chr6:30059451-30071330	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv884052	chr6:30059592-30067681	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	nsv884053	chr6:30059592-30070538	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	diseases
6	nsv884054	chr6:30061361-30069525	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	nsv524794	chr6:30066031-30067892	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7763159	HCG22	cis	lymphoblastoid	seeQTL
rs7763159	ZKSCAN3	cis	cerebellum	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30062200-30067800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:30063400-30068400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:30063600-30068200	Weak transcription	HMEC	breast
4	chr6:30063800-30068000	Weak transcription	Lung	lung
5	chr6:30064000-30068000	Enhancers	HepG2	liver
6	chr6:30064800-30068400	Bivalent Enhancer	Fetal Intestine Large	intestine
7	chr6:30064800-30069600	Bivalent Enhancer	Fetal Thymus	thymus
8	chr6:30065400-30068800	Weak transcription	Gastric	stomach
9	chr6:30066200-30068000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:30066200-30068200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:30066600-30067800	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:30066800-30067800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr6:30067000-30068200	Bivalent Enhancer	Fetal Intestine Small	intestine
14	chr6:30067000-30068400	Bivalent Enhancer	Primary T cells from cord blood	blood
15	chr6:30067200-30068000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
16	chr6:30067600-30067800	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
17	chr6:30067600-30068000	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
18	chr6:30067600-30068000	Bivalent Enhancer	Rectal Smooth Muscle	rectum
19	chr6:30067600-30068200	Enhancers	Duodenum Mucosa	Duodenum
20	chr6:30067600-30068400	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
21	chr6:30067600-30068400	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--

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