Variant report

Variant	rs1111776
Chromosome Location	chr9:96061269-96061270
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96060041..96062788-chr9:96072993..96075131,2	MCF-7	breast:
2	chr9:96054205..96058755-chr9:96061052..96064429,5	MCF-7	breast:
3	chr9:95988443..95991270-chr9:96059116..96061610,2	MCF-7	breast:
4	chr9:96049367..96052330-chr9:96060124..96062687,2	K562	blood:
5	chr9:96050206..96051928-chr9:96059478..96062127,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165238	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10119816	0.84[AMR][1000 genomes]
rs10512226	0.85[TSI][hapmap]
rs10733747	0.97[EUR][1000 genomes]
rs10761206	0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10761208	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10821104	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12341311	0.89[ASW][hapmap]
rs12350787	1.00[CHB][hapmap]
rs12683662	0.95[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12684392	1.00[ASW][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12684553	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1331588	0.85[TSI][hapmap]
rs1343631	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16909013	0.89[ASW][hapmap]
rs1889338	0.87[YRI][hapmap]
rs1891970	0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1931365	0.94[EUR][1000 genomes]
rs1931366	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1931367	0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1931368	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1936401	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2151714	0.87[YRI][hapmap]
rs2169756	0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2991376	0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs2995999	0.96[YRI][hapmap]
rs3001449	0.90[AFR][1000 genomes]
rs3001453	0.83[GIH][hapmap]
rs3847306	0.85[GIH][hapmap]
rs4147136	0.94[EUR][1000 genomes]
rs4548243	0.87[YRI][hapmap]
rs4743908	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4743909	0.94[EUR][1000 genomes]
rs4743913	0.96[YRI][hapmap];0.92[AFR][1000 genomes]
rs4743914	0.96[YRI][hapmap];0.95[AFR][1000 genomes]
rs4744209	0.94[EUR][1000 genomes]
rs4744210	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4744214	0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56161352	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs56311541	0.84[AMR][1000 genomes]
rs58228786	0.84[AMR][1000 genomes]
rs58965550	0.84[AMR][1000 genomes]
rs6479458	0.85[GIH][hapmap]
rs6479470	0.87[TSI][hapmap];0.94[EUR][1000 genomes]
rs6479472	1.00[EUR][1000 genomes]
rs6479473	0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7020940	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7021187	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7025514	0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7025611	0.96[YRI][hapmap];0.90[AFR][1000 genomes]
rs7031917	0.89[YRI][hapmap];0.84[AFR][1000 genomes]
rs7035727	0.84[AMR][1000 genomes]
rs7042028	0.91[EUR][1000 genomes]
rs7042492	0.96[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7044229	0.95[AFR][1000 genomes]
rs73651379	0.84[AMR][1000 genomes]
rs73651384	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7853075	0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7856268	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7866298	0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7872608	0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9657693	0.92[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893576	chr9:95789960-96158277	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv893580	chr9:95855100-96099377	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv430082	chr9:95905745-96095045	Genic enhancers Enhancers Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv893582	chr9:95963114-96116937	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893583	chr9:95996573-96091688	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv893584	chr9:96002983-96116937	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96031400-96062800	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr9:96033000-96067200	Weak transcription	Brain Angular Gyrus	brain
3	chr9:96033400-96062800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr9:96033400-96067000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr9:96033400-96077200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:96033600-96072800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr9:96047200-96065000	Weak transcription	Fetal Brain Male	brain
8	chr9:96051400-96067800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr9:96052200-96066600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr9:96055600-96080200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:96056400-96079800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:96056800-96067400	Weak transcription	Brain Anterior Caudate	brain
13	chr9:96058000-96062000	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr9:96058000-96063200	Weak transcription	Right Atrium	heart
15	chr9:96058200-96061400	Weak transcription	Spleen	Spleen
16	chr9:96058200-96064600	Weak transcription	Primary B cells from peripheral blood	blood
17	chr9:96058200-96064600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr9:96059000-96063800	Enhancers	Fetal Heart	heart
19	chr9:96059400-96061400	Enhancers	Fetal Thymus	thymus
20	chr9:96059400-96064200	Strong transcription	Fetal Brain Female	brain
21	chr9:96059600-96063000	Enhancers	Duodenum Mucosa	Duodenum
22	chr9:96059600-96063000	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr9:96059600-96067000	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr9:96059800-96061400	Strong transcription	Stomach Smooth Muscle	stomach
25	chr9:96059800-96062000	Enhancers	Rectal Mucosa Donor 29	rectum
26	chr9:96059800-96064600	Strong transcription	Brain Germinal Matrix	brain
27	chr9:96060000-96061600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr9:96060000-96062200	Enhancers	Fetal Muscle Leg	muscle
29	chr9:96060000-96063600	Genic enhancers	Rectal Mucosa Donor 31	rectum
30	chr9:96060000-96065000	Enhancers	Colonic Mucosa	Colon
31	chr9:96060000-96066200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr9:96060200-96061600	Genic enhancers	Fetal Intestine Large	intestine
33	chr9:96060200-96061800	Flanking Active TSS	HepG2	liver
34	chr9:96060400-96061600	Enhancers	Gastric	stomach
35	chr9:96060400-96063400	Genic enhancers	Fetal Intestine Small	intestine
36	chr9:96060600-96061800	Enhancers	Fetal Lung	lung
37	chr9:96060600-96062000	Genic enhancers	Pancreas	Pancrea
38	chr9:96060800-96061400	Strong transcription	Rectal Smooth Muscle	rectum
39	chr9:96060800-96061800	Genic enhancers	Fetal Stomach	stomach
40	chr9:96060800-96061800	Enhancers	A549	lung
41	chr9:96060800-96062000	Enhancers	Placenta	Placenta
42	chr9:96060800-96062200	Enhancers	Psoas Muscle	Psoas
43	chr9:96060800-96063400	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr9:96061000-96061400	Enhancers	Stomach Mucosa	stomach
45	chr9:96061000-96061600	Enhancers	Brain Inferior Temporal Lobe	brain
46	chr9:96061000-96061800	Enhancers	Right Ventricle	heart
47	chr9:96061000-96062000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
48	chr9:96061000-96065800	Weak transcription	Colon Smooth Muscle	Colon
49	chr9:96061000-96072200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr9:96061200-96061400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland

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