Variant report

Variant	rs7396889
Chromosome Location	chr11:9094508-9094509
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:9093993..9096683-chr11:9129654..9132296,2	MCF-7	breast:
2	chr11:9088886..9093572-chr11:9094471..9099536,5	MCF-7	breast:
3	chr11:9092833..9094684-chr11:9112419..9114154,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175356	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2647530	0.81[TSI][hapmap]
rs3751050	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61876349	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876350	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7395330	0.82[EUR][1000 genomes]
rs7929797	0.83[GIH][hapmap];0.96[TSI][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv33264	chr11:9007612-9311131	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv896985	chr11:9013002-9152463	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv467704	chr11:9059192-9125301	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv553454	chr11:9059192-9125301	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv467706	chr11:9077652-9114999	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv553455	chr11:9077652-9114999	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9058400-9099800	Weak transcription	Aorta	Aorta
2	chr11:9070200-9097200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:9070400-9098400	Weak transcription	Colonic Mucosa	Colon
4	chr11:9078800-9098000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr11:9079000-9096200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:9086600-9094600	Weak transcription	Fetal Thymus	thymus
7	chr11:9088200-9112400	Weak transcription	HSMM	muscle
8	chr11:9088400-9097200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr11:9088400-9100200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:9088800-9097000	Weak transcription	Colon Smooth Muscle	Colon
11	chr11:9089800-9097000	Weak transcription	Left Ventricle	heart
12	chr11:9090200-9099200	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr11:9091800-9099800	Weak transcription	Adipose Nuclei	Adipose
14	chr11:9092400-9097200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr11:9092600-9096000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr11:9092800-9095600	Weak transcription	Fetal Stomach	stomach
17	chr11:9092800-9099400	Weak transcription	Duodenum Mucosa	Duodenum
18	chr11:9093000-9095600	Weak transcription	Fetal Lung	lung
19	chr11:9093200-9095800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr11:9093200-9096200	Weak transcription	Placenta	Placenta
21	chr11:9093200-9097000	Weak transcription	Gastric	stomach
22	chr11:9093400-9094600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr11:9093400-9095800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr11:9093400-9096000	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr11:9093400-9096000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:9093400-9099600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr11:9093400-9100000	Weak transcription	Fetal Intestine Large	intestine
28	chr11:9093400-9110200	Weak transcription	Pancreas	Pancrea
29	chr11:9093600-9097000	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr11:9093600-9097000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr11:9094000-9094600	Enhancers	Fetal Muscle Trunk	muscle
32	chr11:9094000-9094800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr11:9094200-9095000	Enhancers	Fetal Muscle Leg	muscle
34	chr11:9094200-9099600	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr11:9094400-9094800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr11:9094400-9094800	Bivalent Enhancer	Stomach Mucosa	stomach
37	chr11:9094400-9096200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr11:9094400-9096400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr11:9094400-9096800	Weak transcription	Brain Germinal Matrix	brain
40	chr11:9094400-9100000	Enhancers	HMEC	breast
41	chr11:9094400-9100200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links