Variant report

Variant	rs9956632
Chromosome Location	chr18:29502263-29502264
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29501674..29503497-chr18:29522527..29524041,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000263823	Chromatin interaction
ENSG00000153339	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs28420519	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28473031	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28504474	1.00[EUR][1000 genomes]
rs28524484	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28760310	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59908498	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7235871	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7244322	0.91[EUR][1000 genomes]
rs73411516	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8084534	0.81[EUR][1000 genomes]
rs8084615	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8085869	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8086361	0.91[EUR][1000 genomes]
rs8098568	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9304106	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9948663	1.00[EUR][1000 genomes]
rs9949329	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9952486	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9952626	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9954954	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9963080	1.00[EUR][1000 genomes]
rs9965666	0.91[AFR][1000 genomes];1.00[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	nsv431975	chr18:29311034-29527902	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1057229	chr18:29335175-29514265	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1067252	chr18:29475073-29583744	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29406200-29518600	Weak transcription	Fetal Brain Male	brain
2	chr18:29417600-29515600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr18:29431800-29512600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr18:29432600-29507600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr18:29432600-29521400	Weak transcription	Stomach Mucosa	stomach
6	chr18:29457000-29505800	Weak transcription	Brain Angular Gyrus	brain
7	chr18:29461600-29518600	Weak transcription	Psoas Muscle	Psoas
8	chr18:29462000-29520000	Weak transcription	Fetal Heart	heart
9	chr18:29463400-29509200	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr18:29469000-29511400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr18:29469600-29507000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr18:29472800-29512000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr18:29473800-29503400	Strong transcription	Primary B cells from peripheral blood	blood
14	chr18:29474200-29510800	Weak transcription	NH-A	brain
15	chr18:29478600-29522000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr18:29479600-29518600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr18:29480600-29511600	Weak transcription	Pancreas	Pancrea
18	chr18:29480600-29519400	Weak transcription	Spleen	Spleen
19	chr18:29480800-29511200	Weak transcription	Hela-S3	cervix
20	chr18:29481400-29511600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr18:29481800-29503000	Weak transcription	Colon Smooth Muscle	Colon
22	chr18:29482000-29506000	Weak transcription	A549	lung
23	chr18:29482000-29511200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr18:29482200-29511200	Weak transcription	NHLF	lung
25	chr18:29482400-29511400	Weak transcription	Brain Hippocampus Middle	brain
26	chr18:29482400-29522000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr18:29482600-29506800	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr18:29482600-29521600	Weak transcription	Rectal Smooth Muscle	rectum
29	chr18:29482800-29521600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr18:29483200-29506600	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr18:29483200-29511200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr18:29484400-29509200	Weak transcription	Gastric	stomach
33	chr18:29484400-29520800	Weak transcription	Fetal Brain Female	brain
34	chr18:29484800-29521000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr18:29485400-29509400	Weak transcription	Small Intestine	intestine
36	chr18:29485600-29506000	Weak transcription	Brain Substantia Nigra	brain
37	chr18:29485600-29506800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr18:29485600-29507800	Weak transcription	Colonic Mucosa	Colon
39	chr18:29485800-29508200	Weak transcription	Brain Germinal Matrix	brain
40	chr18:29487600-29506400	Weak transcription	Left Ventricle	heart
41	chr18:29487600-29508200	Weak transcription	Fetal Kidney	kidney
42	chr18:29487800-29511200	Weak transcription	HSMMtube	muscle
43	chr18:29488000-29519600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr18:29488200-29505800	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr18:29488400-29506600	Weak transcription	HUVEC	blood vessel
46	chr18:29488400-29511000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr18:29488400-29511200	Weak transcription	Brain Anterior Caudate	brain
48	chr18:29490200-29511200	Weak transcription	NHDF-Ad	bronchial
49	chr18:29490400-29504000	Strong transcription	Duodenum Mucosa	Duodenum
50	chr18:29490400-29519000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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