Variant report

Variant	rs6479524
Chromosome Location	chr9:96794326-96794327
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96791676..96794493-chr9:96936767..96941836,4	MCF-7	breast:
2	chr9:96791956..96794354-chr9:96926207..96931491,6	MCF-7	breast:
3	chr9:96792323..96794528-chr9:96927672..96930924,4	MCF-7	breast:
4	chr9:96792104..96794426-chr9:96846620..96848608,2	MCF-7	breast:
5	chr9:96790378..96795979-chr9:96796527..96801819,13	MCF-7	breast:
6	chr9:96790823..96795467-chr9:96925835..96932235,7	K562	blood:
7	chr9:96793114..96795953-chr9:96849084..96851331,2	K562	blood:
8	chr9:96791853..96794356-chr9:96860367..96862558,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000199133	Chromatin interaction
ENSG00000199165	Chromatin interaction
ENSG00000158079	Chromatin interaction
ENSG00000269946	Chromatin interaction
ENSG00000269929	Chromatin interaction
ENSG00000227666	Chromatin interaction
ENSG00000199072	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10116369	1.00[MEX][hapmap]
rs7019701	0.93[AFR][1000 genomes]
rs7024817	1.00[MEX][hapmap]
rs7039624	1.00[MEX][hapmap]
rs7852992	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7855941	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7863033	0.80[AFR][1000 genomes]
rs7866977	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes]
rs7874963	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]

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	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	esv3426132	chr9:96782446-96794518	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96792200-96794400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
2	chr9:96792200-96794400	Active TSS	Duodenum Smooth Muscle	Duodenum
3	chr9:96792200-96794400	Active TSS	Right Ventricle	heart
4	chr9:96792200-96794600	Active TSS	HSMMtube	muscle
5	chr9:96792400-96794400	Active TSS	Left Ventricle	heart
6	chr9:96792400-96794400	Active TSS	Psoas Muscle	Psoas
7	chr9:96792400-96794600	Active TSS	Right Atrium	heart
8	chr9:96793600-96794400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
9	chr9:96793600-96794400	Flanking Active TSS	Fetal Brain Male	brain
10	chr9:96793600-96794400	Flanking Active TSS	Hela-S3	cervix
11	chr9:96793600-96794600	Flanking Active TSS	Dnd41	blood
12	chr9:96793600-96794600	Flanking Active TSS	Osteobl	bone
13	chr9:96793800-96794400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr9:96793800-96794400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
15	chr9:96793800-96794600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:96793800-96794600	Enhancers	Primary B cells from peripheral blood	blood
17	chr9:96793800-96794600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr9:96793800-96794600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
19	chr9:96793800-96794600	Flanking Active TSS	Stomach Smooth Muscle	stomach
20	chr9:96793800-96794600	Flanking Active TSS	HepG2	liver
21	chr9:96793800-96794800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr9:96793800-96794800	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr9:96793800-96794800	Enhancers	Stomach Mucosa	stomach
24	chr9:96793800-96795200	Enhancers	Fetal Muscle Leg	muscle
25	chr9:96793800-96795200	Weak transcription	Lung	lung
26	chr9:96793800-96795400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:96793800-96801000	Weak transcription	Pancreas	Pancrea
28	chr9:96793800-96804800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr9:96794000-96794400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:96794000-96794400	Enhancers	Brain Cingulate Gyrus	brain
31	chr9:96794000-96794600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr9:96794000-96794600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr9:96794000-96794600	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr9:96794000-96794800	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr9:96794000-96794800	Enhancers	Brain Substantia Nigra	brain
36	chr9:96794000-96794800	Enhancers	HUVEC	blood vessel
37	chr9:96794000-96795000	Enhancers	Brain Germinal Matrix	brain
38	chr9:96794000-96795400	Enhancers	Fetal Stomach	stomach
39	chr9:96794200-96794400	Active TSS	Primary T cells from cord blood	blood
40	chr9:96794200-96794400	Enhancers	Primary T helper cells fromperipheralblood	blood
41	chr9:96794200-96794400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
42	chr9:96794200-96794400	Enhancers	Duodenum Mucosa	Duodenum
43	chr9:96794200-96794400	Active TSS	Fetal Kidney	kidney
44	chr9:96794200-96794400	Active TSS	A549	lung
45	chr9:96794200-96794400	Flanking Active TSS	HMEC	breast
46	chr9:96794200-96794400	Enhancers	K562	blood
47	chr9:96794200-96794400	Enhancers	NHEK	skin
48	chr9:96794200-96794600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:96794200-96794600	Enhancers	Adipose Nuclei	Adipose
50	chr9:96794200-96794600	Enhancers	Aorta	Aorta

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