Variant report

Variant	rs7769085
Chromosome Location	chr6:73869714-73869715
allele	G/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:3)
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	chr6:73869669-73869719	HEK293	kidney:	embryo
2	chr6:73869669-73869719	LNCaP	prostate:	n/a
3	chr6:73869669-73869719	CMK	blood:	n/a
4	chr6:73869669-73869719	T-47D	breast:	n/a
5	chr6:73869669-73869719	NHBE	bronchial:	n/a
6	chr6:73869669-73869719	HCF	heart:	n/a
7	chr6:73869669-73869719	GM12892	blood:	n/a
8	chr6:73869669-73869719	ProgFib	skin:	n/a
9	chr6:73869669-73869719	HepG2	liver:	n/a
10	chr6:73869669-73869719	AG10803	skin:	n/a
11	chr6:73869669-73869719	SK-N-MC	brain:	n/a
12	chr6:73869669-73869719	HMEC	breast:	n/a
13	chr6:73869669-73869719	GM19239	blood:	n/a
14	chr6:73869669-73869719	HEEpiC	esophagus:	n/a
15	chr6:73869669-73869719	MCF10A-Er-Src	breast:	n/a
16	chr6:73869669-73869719	ECC-1	luminal epithelium:	n/a
17	chr6:73869669-73869719	Hela-S3	cervix:	n/a
18	chr6:73869669-73869719	AG09319	gingival:	n/a
19	chr6:73869669-73869719	Caco-2	colon:	n/a
20	chr6:73869669-73869719	HUVEC	blood vessel:	n/a
21	chr6:73869669-73869719	Jurkat	blood:	n/a
22	chr6:73869669-73869719	NB4	blood:	n/a
23	chr6:73869669-73869719	AG04449	skin:	fetal
24	chr6:73869669-73869719	HRPEpiC	eye:	n/a
25	chr6:73869669-73869719	AG04450	lung:	fetal
26	chr6:73869669-73869719	GM12891	blood:	n/a
27	chr6:73869669-73869719	NH-A	brain:	n/a
28	chr6:73869669-73869719	PFSK-1	brain:	n/a
29	chr6:73869669-73869719	HAEpiC	amniotic membrane:	n/a
30	chr6:73869669-73869719	RPTEC	kidney:	n/a
31	chr6:73869669-73869719	U87	brain:	n/a
32	chr6:73869669-73869719	MCF-7	breast:	n/a
33	chr6:73869669-73869719	SK-N-SH_RA	brain:	n/a
34	chr6:73869669-73869719	HCT-116	colon:	n/a
35	chr6:73869669-73869719	NT2-D1	testis:	n/a
36	chr6:73869669-73869719	HRE	kidney:	n/a
37	chr6:73869669-73869719	IMR90	lung:	fetal
38	chr6:73869669-73869719	HL-60	blood:	n/a
39	chr6:73869669-73869719	NHDF-neo	bronchial:	n/a
40	chr6:73869669-73869719	SK-N-SH	brain:	n/a
41	chr6:73869669-73869719	SAEC	small airway:	n/a
42	chr6:73869669-73869719	PrEC	prostate:	n/a
43	chr6:73869669-73869719	GM12878	blood:	n/a
44	chr6:73869669-73869719	SKMC	muscle:	n/a
45	chr6:73869669-73869719	HCM	heart:	n/a
46	chr6:73869669-73869719	AG09309	skin:	n/a
47	chr6:73869669-73869719	HCPEpiC	choroid plexus:	n/a
48	chr6:73869669-73869719	HNPCEpiC	eye:	n/a
49	chr6:73869669-73869719	AoSMC	blood vessel:	n/a
50	chr6:73869669-73869719	K562	blood:	n/a

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	6:73859137-73881637..6:73927031-73938730	Hela-S3	cervix:
2	6:73859137-73881637..6:74062967-74076046	GM12878	blood:
3	6:73859137-73881637..6:74099986-74112890	GM12878	blood:

No data

Variant related genes	Relation type
ENSG00000234025	CpG island
ENSG00000224221	Chromatin interaction
ENSG00000203907	Chromatin interaction
ENSG00000203908	Chromatin interaction
ENSG00000256980	Chromatin interaction
ENSG00000238464	Chromatin interaction
ENSG00000080007	Chromatin interaction
ENSG00000203909	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1974369	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs2350387	0.88[CEU][hapmap]
rs2350389	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs2882406	0.81[CEU][hapmap]
rs4235874	1.00[JPT][hapmap]
rs6453644	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs6453645	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs6453646	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs6453649	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs6939575	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs7748250	0.84[CEU][hapmap]
rs7748418	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs7762949	0.94[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap]
rs7763514	0.88[CEU][hapmap]
rs884957	1.00[CEU][hapmap];0.91[JPT][hapmap];0.92[YRI][hapmap]
rs9343011	0.91[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs947748	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	esv1004012	chr6:73866875-73870455	Weak transcription ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	8 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	chr6:73846400-73879200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:73856600-73876600	Weak transcription	Primary B cells from cord blood	blood
3	chr6:73863200-73876400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:73863600-73878000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:73867000-73884600	Weak transcription	Primary T cells from cord blood	blood
6	chr6:73867400-73880600	Weak transcription	Aorta	Aorta
7	chr6:73867600-73890400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr6:73867600-73890400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:73867800-73876400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:73867800-73876800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:73869000-73904200	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links