Variant report

Variant	rs11789923
Chromosome Location	chr9:14168860-14168861
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	chr9:14162427..14164558-chr9:14167650..14169724,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10114590	0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs10114939	0.92[AMR][1000 genomes]
rs10117741	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10120754	0.92[YRI][hapmap];0.92[AMR][1000 genomes]
rs10123886	0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs10125421	0.84[AMR][1000 genomes]
rs10810100	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs10810101	0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10961398	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11788568	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs12335788	0.82[YRI][hapmap];0.84[AMR][1000 genomes]
rs12335815	0.84[AMR][1000 genomes]
rs12340536	0.84[AMR][1000 genomes]
rs12341599	0.84[AMR][1000 genomes]
rs12344875	0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs12344913	0.84[AMR][1000 genomes]
rs12349598	1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs12351537	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16931417	0.84[AMR][1000 genomes]
rs2078463	0.86[YRI][hapmap]
rs7018963	0.92[YRI][hapmap]
rs7033653	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7042124	0.84[AMR][1000 genomes]
rs7042142	0.87[YRI][hapmap];0.84[AMR][1000 genomes]
rs7047737	0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7846990	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv892593	chr9:13948798-14233159	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv429998	chr9:14043516-14214688	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv892596	chr9:14145487-14208724	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv892597	chr9:14163383-14233159	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14116600-14179200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:14117000-14171200	Weak transcription	Hela-S3	cervix
3	chr9:14123800-14198600	Weak transcription	Gastric	stomach
4	chr9:14131800-14173200	Weak transcription	Pancreas	Pancrea
5	chr9:14134000-14181000	Weak transcription	Ovary	ovary
6	chr9:14156800-14175600	Weak transcription	Liver	Liver
7	chr9:14157600-14173600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr9:14159800-14169200	Weak transcription	Aorta	Aorta
9	chr9:14159800-14176600	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:14159800-14180200	Weak transcription	Fetal Stomach	stomach
11	chr9:14160000-14169600	Weak transcription	Right Atrium	heart
12	chr9:14160600-14181400	Weak transcription	HSMM	muscle
13	chr9:14161000-14170600	Weak transcription	HUVEC	blood vessel
14	chr9:14162000-14170200	Weak transcription	Adipose Nuclei	Adipose
15	chr9:14162400-14175400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:14165000-14170800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:14165000-14180200	Weak transcription	Brain Angular Gyrus	brain
18	chr9:14165400-14170200	Weak transcription	NHEK	skin
19	chr9:14165600-14179200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr9:14165800-14170200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr9:14165800-14170800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr9:14165800-14173600	Weak transcription	Fetal Lung	lung
23	chr9:14165800-14178800	Weak transcription	Brain Germinal Matrix	brain
24	chr9:14165800-14178800	Weak transcription	Colon Smooth Muscle	Colon
25	chr9:14165800-14179200	Weak transcription	Fetal Brain Male	brain
26	chr9:14165800-14180200	Weak transcription	Brain Anterior Caudate	brain
27	chr9:14165800-14181800	Weak transcription	Psoas Muscle	Psoas
28	chr9:14166000-14169000	Weak transcription	Brain Substantia Nigra	brain
29	chr9:14166000-14170200	Weak transcription	Right Ventricle	heart
30	chr9:14166000-14170200	Weak transcription	HMEC	breast
31	chr9:14166200-14170000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr9:14166200-14183200	Weak transcription	Esophagus	oesophagus
33	chr9:14166600-14170800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr9:14166800-14170400	Weak transcription	A549	lung
35	chr9:14167400-14169400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:14168000-14169400	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr9:14168000-14169600	Enhancers	Fetal Heart	heart
38	chr9:14168200-14169000	Enhancers	Brain Cingulate Gyrus	brain
39	chr9:14168200-14171400	Strong transcription	Fetal Muscle Leg	muscle
40	chr9:14168200-14173600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr9:14168600-14170200	Weak transcription	Left Ventricle	heart
42	chr9:14168800-14179600	Weak transcription	Fetal Brain Female	brain

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